2023-01-30 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-22 ---------- 2023-01-29 Jean Thioulouse * src/testsCpp.cpp: remove useless declarations of spl1 lists array remove useless declarations of spl1 lists array 2023-01-27 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-21 ---------- 2023-01-27 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-21 ---------- 2023-01-27 Aurélie Siberchicot * : Reduce pnm size to lighten the package 2023-01-25 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml: Delete the workflow to build binaries under mac-arm64 configuration not yet available with github actions: https://github.com/actions/runner-images/issues/2187 2023-01-25 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml: Update build-bin-macOS-arm64.yaml 2023-01-24 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml: Update build-bin-macOS-arm64.yaml: try another label for arm64 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml, .github/workflows/build-bin-macOS.yaml, .github/workflows/build-bin-windows.yaml: Update workflows to build binaries for maOS and windows: correct misprints 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml: Update build-bin-macOS-arm64.yaml 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml: Update build-bin-macOS-arm64 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS-arm64.yaml, .github/workflows/build-bin-macOS.yaml: Separate the workflow script to handle two architectures for mac (intel and arm) 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS.yaml: Update build-bin-macOS: try to also build the package with an 'arm' configuration for macOS 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-windows.yaml: Add build-bin-windows.yaml 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS.yaml: Correct a misprint in build-bin-macOS.yaml 2023-01-23 Aurélie Siberchicot * .github/workflows/build-bin-macOS.yaml: Add the workflow build-bin-macOS.yaml 2023-01-20 Aurélie Siberchicot * .github/workflows/R-CMD-check-rcpp.yaml: Delete R-CMD-check-rcpp.yaml after merging the ade4-rcpp branch 2023-01-17 Aurélie Siberchicot * : commit e484cff4deb9bd91f7e09e39ce11f0170454616f Author: Aurélie Siberchicot Date: Mon Jan 16 15:37:38 2023 +0100 2023-01-16 Aurélie Siberchicot * .github/workflows/R-CMD-check-rcpp.yaml: Update R-CMD-check-rcpp.yaml: add libraries for macOS 2023-01-16 Aurélie Siberchicot * .github/workflows/R-CMD-check.yaml: Update R-CMD-check.yaml: add libraries for macOS 2023-01-13 Jean Thioulouse * R/randtest.between.R: Update randtest.between.R put back the definition of X.lw 2023-01-13 Aurélie Siberchicot * .github/workflows/R-CMD-check.yaml: Update R-CMD-check.yaml: add xquartz for macOS 2023-01-13 Aurélie Siberchicot * .github/workflows/R-CMD-check-rcpp.yaml: Correct indentation in R-CMD-check-rcpp 2023-01-13 Aurélie Siberchicot * .github/workflows/R-CMD-check-rcpp.yaml: Add a copy of R-CMD-check-rcpp.yaml in the ade4-Rcpp branch 2023-01-13 Aurélie Siberchicot * .Rbuildignore: A minor commit to in the ade4-Rcpp branch to trigger R-CMD-check-rcpp 2023-01-13 Aurélie Siberchicot * .github/workflows/R-CMD-check.yaml: Correct a misprint in R-CMD-check.yaml 2023-01-13 Aurélie Siberchicot * .github/workflows/R-CMD-check.yaml: Update R-CMD-check.yaml: install udunits for macOS 2023-01-11 Aurélie Siberchicot * .github/workflows/R-CMD-check.yaml: Update R-CMD-check.yaml: a lot of tags are deprecated 2023-01-11 Aurélie Siberchicot * .github/workflows/R-CMD-check-rcpp.yaml, .github/workflows/R-CMD-check.yaml: Add a workflow to check the ade4-Rcpp branch 2023-01-11 Aurélie Siberchicot * README.md: Update README 2023-01-11 Aurélie Siberchicot * R/dist.ktab.R: Correct a bug in the function 'ldist.ktab' for fuzzy data 2023-01-04 Jean Thioulouse * R/mantel.randtest.R, R/randtest.between.R: Cleaning R code Cleaning R code for unused variables after moving from C to C++ calls 2023-01-03 Aurélie Siberchicot * : commit 3b3c2d79a1587998868e8599849dfec84afa3ece Author: Aurélie Siberchicot Date: Tue Jan 3 15:59:01 2023 +0100 2023-01-02 Aurélie Siberchicot * R/dist.ktab.R: Just indent 2022-11-02 Aurélie Siberchicot * man/presid2002.Rd: Update URL in presid2002 2022-11-01 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-20 ---------- 2022-11-01 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-20 ---------- 2022-11-01 Aurélie Siberchicot * R/area.plot.R, R/kdisteuclid.R, R/s.label.R, R/s.logo.R, R/s.value.R, R/supdist.R: Correct if() conditions comparing class() to string, now use inherits() as required by R CMD check 2022-11-01 Aurélie Siberchicot * man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/bca.Rd, man/bca.coinertia.Rd, man/buech.Rd, man/butterfly.Rd, man/bwca.dpcoa.Rd, man/capitales.Rd, man/elec88.Rd, man/ggtortoises.Rd, man/irishdata.Rd, man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/mafragh.Rd, man/pcw.Rd, man/sarcelles.Rd, man/supdist.Rd, man/suprow.pta.Rd, man/t3012.Rd, man/tintoodiel.Rd, man/vegtf.Rd, man/wca.Rd, man/wca.coinertia.Rd, man/zealand.Rd: Add a newline at the end of several Rd files 2022-10-28 Stéphane Dray * src/fourthcorner.c: Correct a bug to deal with non-integers values in table L Homogenity/correlation ratio measures require to have at least 23 individuals per class to be computed (computing a variance requires at leats 2 indiciduals). When dealing with non-integres values in L (e.g. cover, proportion), we must count the number of non-null cells (correpondence) but not the total abundance (which can be less than 1 and thus induces a bug in the if condition) 2022-10-20 Stéphane Dray * src/divsub.c, src/phylog.c, src/testamova.c: Change encoding from ISO-8859 to UTF-8 Modify the encoding to properly manage accented characters in comments. It induced a WARNING on Rdevel (mail by K Hornick) 2022-10-20 Stéphane Dray * man/chickenk.Rd, man/multispati.Rd, man/randboot.Rd: Remove LateX special characters Remove symbols that returns a NOTE in Rdevel 2022-06-29 Jean Thioulouse * man/randtest.Rd: added links to other methods & functions for permutation tests 2022-05-05 Jean Thioulouse * R/procuste.R, R/procuste.randtest.R: Update of procuste analysis permutation test Functions ade4:::randtest.procuste and procuste.randtest now call the R function procuste.rtest instead of calling the C function testprocuste 2022-05-05 Jean Thioulouse * : Update mafragh.rda version = 2 for compat with R 2.5 2022-05-05 Jean Thioulouse * : Update mafragh.rda set class of mafragh$spenames$scientific and mafragh$spenames$code to character 2022-04-19 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-19 ---------- 2022-04-19 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-19 ---------- 2022-04-19 Aurélie Siberchicot * man/pcw.Rd: Update a help file: a 'url' tag becomes a 'doi' tag 2022-03-07 Stéphane Dray * README.md: Add a badge for the licence required to apply for BlueHats Semester of Code 2022-01-04 Stéphane Dray * src/testdim.c: Specify string lengths to BLAS/LAPACK routines to allow compilation using new compilers The solution is to pass the unit string lengths explicitly using FCONE defined in Rconfig.h if USE_FC_LEN_T is defined. See http://developer.r-project.org/blosxom.cgi/R-devel/2019/08/29#n2019-08-29. Update required by B. Ripley by email (18/09/2021) for compatibility for next R versions 2021-12-30 Jean Thioulouse * R/loocv.R: Update loocv.R modifications for the case p = 1 (only one variable): need to avoid type coercition from dataframe to vector. And also, no need to check axis direction. 2021-12-14 Jean Thioulouse * man/supdist.Rd: Update supdist.Rd Supplementary distances plotted in red in supdist example 2021-10-08 Jean Thioulouse * man/houmousr.Rd: Added the houmousr data set House Mouse morphometric data set, used in: Thioulouse, J., Renaud, S., Dufour, AB. et al. Overcoming the Spurious Groups Problem in Between-Group PCA. Evol Biol (2021). https://doi.org/10.1007/s11692-021-09550-0 2021-09-29 Aurélie Siberchicot * man/pcw.Rd: Update URL 2021-09-16 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-18 ---------- 2021-09-16 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-18 ---------- 2021-09-16 Aurélie Siberchicot * man/loocv.bca.Rd: Update the help file of 'loocv.bca': the 'url' tag becomes 'doi' for the references 2021-09-15 Jean Thioulouse * man/loocv.bca.Rd: Update loocv.bca.Rd 2021-09-14 Aurélie Siberchicot * man/pcw.Rd: Update URL 2021-07-07 Jean Thioulouse * NAMESPACE, R/loocv.R, man/loocv.bca.Rd, man/loocv.discrimin.Rd: updates to print and plot functions for loocv objects updates to print and plot functions for bca and discrimin loocv objects 2021-07-06 Jean Thioulouse * NAMESPACE, R/loocv.R, man/loocv.bca.Rd, man/loocv.discrimin.Rd, src/init.c: added print and plot functions for loocv Added print and (dummy) plot functions for loocv objects (bca + discrimin). Added two classes for the corresponding objects: bcaloocv and discloocv. Added the attributes and matched calls to these objects in the loocv functions. Plot functions are really implemented only in adegraphics. 2021-06-17 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-17 ---------- 2021-06-17 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-17 ---------- 2021-06-17 Aurélie Siberchicot * .Rbuildignore, .gitignore: Update the files .Rbuildignore and .gitignore 2021-06-17 Stéphane Dray * R/loocv.R, man/loocv.bca.Rd, man/loocv.discrimin.Rd: Remove sPRESS which is not included in Thioulouse et al submitted paper 2021-05-25 Aurélie Siberchicot * : commit 3d4d3529323ddefb6ff3fe4df067c2a11e5bd8fc Author: Aurélie Siberchicot Date: Tue May 25 10:22:11 2021 +0200 2021-05-21 Jean Thioulouse * R/loocv.R, man/loocv.bca.Rd, man/loocv.discrimin.Rd: added DeltaOij in loocv ouputs added DeltaOij in loocv ouputs 2021-05-18 Aurélie Siberchicot * man/bwca.dpcoa.Rd: Update the link to the soilmicrob dataset: it is now a symbolic https link 2021-04-27 Jean * man/loocv.bca.Rd, man/loocv.discrimin.Rd: update loocv docs update to loocv.between and loocv.discrimin Rd doc files 2021-04-26 Jean * DESCRIPTION, NAMESPACE, R/loocv.R: remove progress + parallel packages from Imports move progress + parallel packages from Imports to Suggests. Changes to DESCRIPTION, NAMESPACE and loocv.R 2021-04-20 Aurélie Siberchicot * man/mbpcaiv.Rd, man/mbpls.Rd, man/multiblock.Rd, man/randboot.multiblock.Rd, man/supdist.Rd, man/testdim.multiblock.Rd: Update help files: \href becomes \doi for doi references 2021-04-16 Jean * man/loocv.bca.Rd, man/loocv.discrimin.Rd: typos in loocv docs 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd 2021-04-16 Jean * man/loocv.bca.Rd, man/loocv.discrimin.Rd, man/loocv.dudi.Rd: typos in loocv functions doc 2021-04-16 Jean * R/loocv.R: added overlap index in loocv.discrimin 2021-04-15 Jean * : commit 133407fe79f38836b762100049ab6418bf315013 Author: Jean Date: Thu Apr 15 15:28:22 2021 +0200 2021-03-24 Jean Thioulouse * R/mcoa.R: Update mcoa.R Problem in function summary.mcoa, sumry[, 6] object$cov2[i, ] should be a 1 column df (or a vector) 2021-02-18 Aurélie Siberchicot * .Rbuildignore, .travis.yml, README.md, appveyor.yml: Delete files and code about travis and appveyor 2021-02-18 Aurélie Siberchicot * .Rbuildignore, .github/.gitignore, .github/workflows/R-CMD-check.yaml, README.md: Add a github workflow to check the package 2021-01-07 Aurélie Siberchicot * R/fourthcorner.R, R/fourthcorner2.R, man/fourthcorner.Rd: Correct a bug: add a stop message in functions fourthcorner and fourthcorner2 when the R or Q matrix don't contain numeric values or factors. 2020-11-02 Jean Thioulouse * man/loocv.dudi.Rd: added details 2020-10-30 Jean * man/loocv.bca.Rd, man/loocv.dudi.Rd: added links in loocv docs added links in loocv.bca.Rd and loocv.dudi.Rd 2020-10-29 Jean * man/loocv.dudi.Rd: Update loocv.dudi.Rd updated loocv.dudi.Rd (doc was based on a previous version of the function) 2020-10-28 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-16 ---------- 2020-10-28 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-16 ---------- 2020-10-28 Aurélie Siberchicot * man/loocv.bca.Rd: Correct typo 2020-10-27 Aurélie Siberchicot * man/loocv.bca.Rd, man/loocv.discrimin.Rd, man/loocv.dudi.Rd, man/pcw.Rd, man/varipart.Rd: Correct typos 2020-10-20 Aurélie Siberchicot * DESCRIPTION, man/arrival.Rd, man/casitas.Rd, man/kcponds.Rd, man/mbpcaiv.Rd, man/mbpls.Rd, man/multiblock.Rd, man/pcw.Rd, man/presid2002.Rd, man/randboot.multiblock.Rd, man/testdim.multiblock.Rd: Update some URL in rd files 2020-10-19 Jean Thioulouse * man/loocv.discrimin.Rd: Update loocv.discrimin.Rd use generic loocv instead of loocv.discrimin in first exemple (skulls) 2020-10-19 Stéphane Dray * DESCRIPTION, NAMESPACE, R/loocv.R, man/loocv.bca.Rd, man/loocv.discrimin.Rd, man/loocv.dudi.Rd: Add a new generic method "loocv" These new functions allows to perform leave one-out cross-validation for several simple dudi, between and discrimin classes 2020-09-28 Aurélie Siberchicot * R/suprow.R: Update a warning in 'suprow.dudi' 2020-06-24 Aurélie Siberchicot * inst/CITATION: Update the CITATION file 2020-06-18 Aurélie Siberchicot * DESCRIPTION: Remove date 2020-06-18 Aurélie Siberchicot * man/apis108.Rd: Update URL 2020-04-23 Stéphane Dray * : commit 9991a008cd8276469ed5987dfebc7bab48241ac1 Author: Stéphane Dray Date: Thu Apr 23 17:21:53 2020 +0200 2020-02-13 Stéphane Dray * ChangeLog: ---------- release of ade4 1.7-15 ---------- 2020-02-13 Stéphane Dray * DESCRIPTION: ---------- release of ade4 1.7-15 ---------- 2020-02-10 Stéphane Dray * DESCRIPTION, man/cailliez.Rd, man/kdisteuclid.Rd, man/oribatid.Rd: Remove some broken URL 2020-02-03 Stéphane Dray * DESCRIPTION: ---------- release of ade4 1.7-14 ---------- 2020-02-03 Stéphane Dray * DESCRIPTION: Packages sp and pixmap are now in 'Imports'as they defined S4 classes used in some data sets. Mail by B. Ripley 2019-10-14 Aurélie Siberchicot * NAMESPACE, R/suprowpta.R, man/suprowpta.Rd: New function 'suprowpta' 2019-09-24 Aurélie Siberchicot * man/randtest.Rd: Trunk a line in a help file 2019-09-20 Aurélie Siberchicot * R/krandtest.R, man/krandtest.Rd, man/randtest.Rd: Udpate and uniformize the help pages of 'krandtest' and 'randtest' 2019-09-19 Aurélie Siberchicot * NAMESPACE, R/krandtest.R, man/krandtest.Rd: Add [ and [[ methods for krandtest 2019-08-07 Stéphane Dray * R/dist.binary.R, R/dist.ktab.R, man/kdist.Rd: Correct a typo: "Sockal" is now "Sokal" (Comment by P. Legendre) 2019-05-17 Aurélie Siberchicot * man/apis108.Rd, man/casitas.Rd, man/chevaine.Rd, man/hdpg.Rd: Simplify the examples of the datasets 'apis108', 'casitas', 'chevaine' and 'hdpg' (no longer use deprecated genetic functions) 2019-05-17 Aurélie Siberchicot * man/s.kde2d.Rd: Update the example used with 's.kde2d' 2019-04-11 Aurélie Siberchicot * NAMESPACE, R/ade4-deprecated.R, R/dist.genet.R, R/fuzzygenet.R, R/genet.R, man/ade4-deprecated.Rd, man/dist.genet.Rd, man/fuzzygenet.Rd, man/genet.Rd: The functions 'dist.genet', 'fuzzygenet', 'char2genet', 'count2genet' and 'freq2genet' are removed 2019-04-10 Aurélie Siberchicot * NAMESPACE, R/EH.R, R/ade4-deprecated.R, R/optimEH.R, R/orisaved.R, R/randEH.R, man/EH.Rd, man/ade4-deprecated.Rd, man/optimEH.Rd, man/orisaved.Rd, man/randEH.Rd: The functions 'EH', 'randEH', 'optimEH' and 'orisaved' are removed 2019-04-10 Aurélie Siberchicot * R/multispati.R, man/multispati.Rd: The 'print.multispati', 'plot.multispati' and 'summary.multispati' methods are now deprecated 2018-10-18 Aurélie Siberchicot * R/dist.ktab.R: Correct a bug in 'dist.ktab', 'ldist.ktab' and 'kdist.cor' 2018-09-03 Aurélie Siberchicot * man/bacteria.Rd: Add url in the help page of 'bacteria' data 2018-08-30 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-13 ---------- 2018-08-30 Aurélie Siberchicot * inst/CITATION, man/bacteria.Rd: Correct invalid URL 2018-08-30 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-12 ---------- 2018-08-30 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-12 ---------- 2018-08-29 Stéphane Dray * DESCRIPTION, inst/CITATION, man/ade4.package.Rd, man/mbpcaiv.Rd, man/mbpls.Rd, man/multiblock.Rd, man/randboot.multiblock.Rd, man/testdim.multiblock.Rd: Update citation and add reference to the new JSS paper 2018-08-20 Stéphane Dray * R/varipart.R: Clean the code 2018-08-06 Stéphane Dray * R/varipart.R: Start a new and faster implementation to deal with unweighted models 2018-08-03 Stéphane Dray * R/varipart.R, man/varipart.Rd: The function 'varipart' now accepts a matrix, vector or data.frame as response table 2018-08-03 Stéphane Dray * NAMESPACE, R/varipart.R, man/varipart.Rd: Improve varipart to compute adjusted fractions when no covaribales are considered and add a new method 'print.varipart' 2018-08-03 Stéphane Dray * man/dist.ktab.Rd: Correct a link to a function in the doc 2018-07-06 Stéphane Dray * R/rlq.R: Correct a typo in the summary.rlq function (mail by Manfred Jensen, 29/06/2018) 2018-06-22 Aurélie Siberchicot * man/maples.Rd: Correct a bibliographic reference 2018-06-20 Stéphane Dray * R/dpcoa.R: correct a small bug in summary.dpcoa 2018-05-23 Aurélie Siberchicot * R/inertia.dudi.R: Update output names in inertia.dudi 2018-05-15 Aurélie Siberchicot * man/inertia.dudi.Rd: Update the help file of 'inertia.dudi' 2018-05-15 Aurélie Siberchicot * man/inertia.dudi.Rd: Update the help file of 'inertia.dudi' 2018-05-15 Aurélie Siberchicot * R/inertia.dudi.R: Update 'inertia.dudi' and 'summary.inertia' 2018-05-14 Stéphane Dray * R/orthobasis.R: Correct the output for orthobasis that contains only one column (and transformed to vector by default, i.e. when drop = TRUE) 2018-04-25 Jean Thioulouse * R/foucart.R: issue raised by Didier Plat https://github.com/sdray/ade4/issues/13 2018-04-05 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-11 ---------- 2018-04-05 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-11 ---------- 2018-04-04 Jean Thioulouse * R/randtest.pcaiv.R: Error in dimnames() vs names() in formula fmla L. 14 : dimnames(df)[[2]] was replaced by names(df)[[2]], which is not good. Replaced by names(df). 2018-03-29 Jean Thioulouse * R/coinertia.R: Misprint in print.coinertia 2018-03-16 Stéphane Dray * R/dudi.mix.R: Correct the extracting in tab (now by drop = FALSE) to deal with cases with only two levels (bug identified by Ceres Barros on GitHub, issue 10) 2018-03-14 Stéphane Dray * NAMESPACE, R/suprow.R, man/suprow.Rd: Add new method "suprow.fca" (proposition by Martial Ferreol on Github) 2018-03-14 Stéphane Dray * R/dudi.coa.R: Correct a bug to deal with large numbers in integer matrix (bug found by Angela Fuentes Pardo, email 10/02/2018) 2018-01-16 Stéphane Dray * .travis.yml: Remove last commit (was an error) 2018-01-16 Stéphane Dray * .travis.yml: Add 'RANN' to allow building vignette 2018-01-03 Aurélie Siberchicot * .travis.yml: Update .travis.yml Remove the '--run-dontrun' argument in the 'r_check_args' tag 2018-01-03 Aurélie Siberchicot * .travis.yml: Update .travis.yml Remove the 'travis_wait' use 2018-01-03 Aurélie Siberchicot * .travis.yml: Update .travis.yml Add a tag to extend the time the command has to finish. 2018-01-03 Aurélie Siberchicot * .travis.yml: Update .travis.yml Add 'r_check_args' and 'r_packages' tags 2017-12-15 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-10 ---------- 2017-12-15 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-10 ---------- 2017-12-15 Aurélie Siberchicot * DESCRIPTION: Correct misprint in the title in the DESCRIPTION file 2017-12-15 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-9 ---------- 2017-12-06 Stéphane Dray * R/mantel.randtest.R, R/mantel.rtest.R: Returned objects now belong to subclass "mantelrtest" (to implement a 'msr.mantelrtest' in adespatial). 2017-12-06 Stéphane Dray * R/randtest.R, man/randtest.Rd: Add a new argument to function as.randtest to specify subclasses for the returned object (by default NULL) 2017-12-05 Aurélie Siberchicot * R/coinertia.R, R/dudi.R, R/dudi.pco.R, R/mbpcaiv.R, R/mbpls.R, R/mcoa.R, R/statis.R, R/utilities.R: Add a message containing the function called for the 'dudi' creation, after user selects nf (Feature request by Zhian N. Kamvar, on Github, 2017-11-07) 2017-12-04 Aurélie Siberchicot * R/dudi.R: Add a message containing the complete call when users interactively choose the number of axes in an analysis 2017-11-03 Stéphane Dray * .travis.yml: Remove addons packages as 'rgdal' is no longer required 2017-11-03 Stéphane Dray * DESCRIPTION, man/area.plot.Rd, man/atya.Rd, man/avijons.Rd, man/kcponds.Rd, man/mafragh.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/neig.Rd, man/tintoodiel.Rd: Remove dependencies to maptools and spData (examples with columbus data set are removed) 2017-11-03 Stéphane Dray * : commit 0d0c2004ce328889b7644f0f86bfc74bc6e552b5 Author: Stéphane Dray Date: Fri Nov 3 11:27:42 2017 +0100 2017-11-02 Aurélie Siberchicot * R/dist.genet.R, R/fuzzygenet.R, R/genet.R, man/dist.genet.Rd, man/fuzzygenet.Rd, man/genet.Rd: The functions 'char2genet', 'count2genet', 'freq2genet', 'dist.genet' and 'fuzzygenet' are deprecated and are now in the 'adegenet' package 2017-11-02 Aurélie Siberchicot * R/EH.R, R/ade4-deprecated.R, R/multispati.R, R/optimEH.R, R/orisaved.R, R/randEH.R: Correct a misprint 2017-11-02 Aurélie Siberchicot * man/optimEH.Rd, man/orisaved.Rd, man/randEH.Rd: Correct typo in the help files of the 'optimEH', 'orisaved' and 'randEH' deprecated functions 2017-11-02 Aurélie Siberchicot * R/multispati.R, man/multispati.Rd: The 'multispati' function is now deprecated 2017-11-01 Stéphane Dray * DESCRIPTION, NAMESPACE, R/mbpcaiv.R, R/mbpls.R, R/s.kde2d.R, man/score.coa.Rd: Add dagnelie.test package MASS in Imports and update calls to MASS functions/Data 2017-11-01 Stéphane Dray * R/dagnelie.test.R, man/dagnelie.test.Rd: Adds Dagnelie's test for multivariate normality 2017-10-31 Aurélie Siberchicot * DESCRIPTION: Specify the required version for the spData package 2017-10-31 Stéphane Dray * R/nipals.R: Correct a bug in the computation of biased sd from unbiased estimator. Thanks to Kevin Wright that identified the problem. 2017-10-30 Aurélie Siberchicot * DESCRIPTION, man/area.plot.Rd, man/neig.Rd: Correct import the 'columbus' data from the spData package that was moved from the spdep package 2017-10-30 Aurélie Siberchicot * : Merge pull request #7 from zkamvar/patch-1 Reset par in kde2d 2017-10-30 Zhian N. Kamvar * R/s.kde2d.R: reset par in kde2d 2017-10-25 Aurélie Siberchicot * man/atya.Rd, man/avijons.Rd, man/buech.Rd, man/butterfly.Rd, man/capitales.Rd, man/elec88.Rd, man/ggtortoises.Rd, man/irishdata.Rd, man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/mafragh.Rd, man/sarcelles.Rd, man/t3012.Rd, man/tintoodiel.Rd, man/vegtf.Rd, man/zealand.Rd: Update help files for data 2017-10-19 Aurélie Siberchicot * R/EH.R, R/optimEH.R, R/orisaved.R, R/randEH.R, man/EH.Rd, man/optimEH.Rd, man/orisaved.Rd, man/randEH.Rd: The 'EH', 'optimEH', 'orisaved' and 'randEH' functions are now deprecated 2017-10-19 Aurélie Siberchicot * man/ade4-deprecated.Rd: Update the 'ade4-deprecated' file: a precision is added and the formatting is updated 2017-10-18 Aurélie Siberchicot * man/carni70.Rd, man/julliot.Rd, man/mjrochet.Rd, man/palm.Rd, man/ungulates.Rd, man/variance.phylog.Rd: Update examples that call the 'orthogram' function 2017-10-18 Aurélie Siberchicot * man/gridrowcol.Rd, man/mld.Rd, man/orthobasis.Rd: Update cross-references for 'othogram' 2017-10-18 Aurélie Siberchicot * man/orthogram.Rd: Remove the help page of 'orthogram' because it is deprecated 2017-10-18 Aurélie Siberchicot * R/ade4-deprecated.R, R/orthogram.R: The R code of the 'orthogram' function is pasted in the 'ade4-deprecated.R' file and the 'orthogram.R' file is removed 2017-10-18 Aurélie Siberchicot * NAMESPACE: The 'orthogram' function is no longer exported because it is deprecated 2017-10-18 Aurélie Siberchicot * man/bca.coinertia.Rd, man/wca.coinertia.Rd, man/withinpca.Rd: Update cross-references for 'between' and 'within' functions 2017-10-18 Aurélie Siberchicot * R/ade4-deprecated.R, R/bca.R, R/bca.coinertia.R, R/wca.R, R/wca.coinertia.R: Move the 'between', 'betweencoinertia', 'within' and 'withincoinertia' R functions in the 'ade4-deprecated' file 2017-10-18 Aurélie Siberchicot * R/ade4-deprecated.R: Add an 'ade4-deprecated' file to store the R code for deprecated functions 2017-10-18 Aurélie Siberchicot * man/ade4-deprecated.Rd: Update the 'ade4-deprecated' help file: the 'between', 'betweencoinertia', 'within' and 'withincoinertia' functions are added as deprecated 2017-10-18 Aurélie Siberchicot * R/bca.R, R/bca.coinertia.R, R/between.R, R/betweencoinertia.R, R/wca.R, R/wca.coinertia.R, R/within.R, R/withincoinertia.R: Rename R files for the 'bca', 'bca.coinertia', 'wca' and 'wca.coinertia' functions 2017-10-18 Aurélie Siberchicot * man/bca.Rd, man/bca.coinertia.Rd, man/between.Rd, man/betweencoinertia.Rd, man/wca.Rd, man/wca.coinertia.Rd, man/within.Rd, man/withincoinertia.Rd: Rename help files for the 'bca', 'bca.coinertia', 'wca' and 'bca.coinertia' functions 2017-10-18 Aurélie Siberchicot * man/between.Rd, man/betweencoinertia.Rd, man/within.Rd, man/withincoinertia.Rd: Update the help file because the 'between', 'betweencoinertia', 'within' and 'withincoinertia' are deprecated 2017-10-09 Aurélie Siberchicot * R/between.R, R/betweencoinertia.R, R/orthogram.R, R/within.R, R/withincoinertia.R: Update the call to the '.Deprecated' function 2017-10-09 Stéphane Dray * R/multiblock.R: Remove an unrequired space 2017-09-18 Aurélie Siberchicot * : commit 7b6de30d8740e9df053e0caa76d5c22cbd939dba Author: Aurélie Siberchicot Date: Mon Sep 18 15:03:04 2017 +0200 2017-08-21 Stéphane Dray * : commit 5fc0e8ce3d26264fb2a7cf6b16672bcd236dd5d9 Author: Stéphane Dray Date: Mon Aug 21 14:02:01 2017 +0200 2017-08-09 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-8 ---------- 2017-08-09 Aurélie Siberchicot * DESCRIPTION: Correct misprints in the DESCRIPTION file 2017-08-09 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-8 ---------- 2017-08-09 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-8 ---------- 2017-08-09 Aurélie Siberchicot * man/divcmax.Rd: Update the example in 'divcmax' with correction sent by Sandrine Pavoine 2017-08-09 Stéphane Dray * DESCRIPTION: Extend the 'Description' field as requested by Uwe Ligges 2017-07-20 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-7 ---------- 2017-07-20 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-7 ---------- 2017-07-19 Stéphane Dray * NAMESPACE, R/varipart.R, man/varipart.Rd: Implement a very simple version of variation partitioning (useful for msr method in adespatial) 2017-07-11 Stéphane Dray * R/randtest.pcaiv.R, R/randtest.pcaivortho.R: Solve a bug to deal properly with 'strange' variables names (environmental variables in mafragh) 2017-07-04 Stéphane Dray * R/supdist.R: Add 'drop' argrument to deal with cases where only one supplementary individual is considered. 2017-06-29 Stéphane Dray * R/multiblock.R: The '...' argument is now passed to the as.krandboot function 2017-06-29 Jean Thioulouse * man/statico.krandtest.Rd: species data must be in the second ktab 2017-06-29 Jean Thioulouse * R/statico.R: species data should not be restandardized in each table 2017-06-23 Aurélie Siberchicot * man/atlas.Rd, man/elec88.Rd, man/irishdata.Rd: Update the help files of 'atlas', 'elec88' and 'irishdata' 2017-06-23 Aurélie Siberchicot * man/mafragh.Rd: Update the mafragh data set: spenames is now a data frame with short names and a new Spatial.contour object is added. 2017-06-23 Jean Thioulouse * README.md: Update README.md 2017-06-23 Jean Thioulouse * README.md: Update README.md 2017-06-20 Jean Thioulouse * README.md: Update README.md 2017-06-20 Jean Thioulouse * README.md: Update README.md 2017-06-19 Aurélie Siberchicot * man/supdist.Rd: Clean the 'supdist' help file 2017-06-18 Jean Thioulouse * NAMESPACE: added function supdist to project additional items in a PCO analysis 2017-06-18 Jean Thioulouse * man/supdist.Rd: Projection of additional items in a PCO analysis 2017-06-18 Jean Thioulouse * R/supdist.R: Projection of additional items in a PCO analysis 2017-06-15 Aurélie Siberchicot * man/mafragh.Rd: Correct the mafragh bibliography 2017-06-02 Aurélie Siberchicot * man/mafragh.Rd: Update the 'mafragh' data set 2017-05-12 Stéphane Dray * R/krandtest.R, R/randtest.R: Update as.randtest/as.krandtest functions to deal with cases with 0 repetitions (useful for msr.4thcorner method implemented in adespatial) 2017-04-21 Aurélie Siberchicot * NAMESPACE, R/ade4toR.R, man/ade4toR.Rd: The 'ade4toR' and 'Rtoade4' unused functions are removed. 2017-04-21 Aurélie Siberchicot * NAMESPACE, R/cca.R, R/randtest.cca.R: The 'cca' function is removed. 2017-04-21 Aurélie Siberchicot * NAMESPACE, R/cca.R, R/pcaiv.R, R/randtest.cca.R, R/randtest.pcaiv.R, man/arrival.Rd, man/cca.Rd, man/pcaiv.Rd, man/randtest.pcaiv.Rd, man/rpjdl.Rd: The 'cca' function is no longer used. 2017-04-11 Aurélie Siberchicot * man/s.logo.Rd: Update the example of the 's.logo' function 2017-04-07 Stéphane Dray * R/between.R: Correct a small bug to deal with weights in wca plots 2017-03-23 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-6 ---------- 2017-03-23 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-6 ---------- 2017-03-23 Aurélie Siberchicot * NAMESPACE: Fix an error with C routines in a Linux configuration 2017-03-22 Aurélie Siberchicot * NAMESPACE, src/init.c: Fix an error with C routines in a Windows configuration (32bit) 2017-03-22 Aurélie Siberchicot * man/divcmax.Rd: Example in divcmax becomes 'dontrun', pending correction 2017-03-20 Aurélie Siberchicot * NAMESPACE, src/init.c: Register native routines (new recommendations in R-3.4.0) 2017-02-24 Stéphane Dray * R/dist.ktab.R: Remove some useless checks 2017-02-16 Aurélie Siberchicot * man/casitas.Rd: Update an invalid URL 2017-02-14 Stéphane Dray * R/dist.ktab.R: Revert commit 0894456972fea6668635069832ef6a7739c1f150 (bug was not fixed by the previous corrections). 2017-02-14 Stéphane Dray * NAMESPACE, R/RV.rtest.R, R/RVdist.randtest.R, R/betwitdpcoa.R, R/combine.4thcorner.R, R/corkdist.R, R/costatis.R, R/fourthcorner.R, R/fourthcorner.rlq.R, R/fourthcorner2.R, R/gearymoran.R, R/krandtest.R, R/mantel.randtest.R, R/mantel.rtest.R, R/multispati.randtest.R, R/multispati.rtest.R, R/niche.R, R/orthogram.R, R/plot.4thcorner.R, R/procuste.R, R/procuste.randtest.R, R/procuste.rtest.R, R/randtest.R, R/randtest.amova.R, R/randtest.between.R, R/randtest.cca.R, R/randtest.coinertia.R, R/randtest.discrimin.R, R/randtest.dpcoa.R, R/randtest.pcaiv.R, R/randtest.pcaivortho.R, R/randtest.rlq.R, R/rtest.R, R/rtest.between.R, R/rtest.discrimin.R, R/statico.R, R/testdim.R, man/RV.rtest.Rd, man/RVdist.randtest.Rd, man/combine.4thcorner.Rd, man/corkdist.Rd, man/costatis.randtest.Rd, man/fourthcorner.Rd, man/krandtest.Rd, man/mantel.randtest.Rd, man/mantel.rtest.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/orthogram.Rd, man/procuste.randtest.Rd, man/procuste.rtest.Rd, man/randtest.Rd, man/rtest.Rd, man/statico.krandtest.Rd: Modify the structures of classes (randtest and rtest) to store outputs of randomization procedures 2017-02-10 Stéphane Dray * R/dist.ktab.R: Correct a bug in the management of fuzzy data. Message of Jean-Yves BARNAGAUD on adelist (08/02/2017). 2017-02-10 Stéphane Dray * R/dist.ktab.R: Reindent lines 2017-02-01 Aurélie Siberchicot * man/divc.Rd, man/divcmax.Rd, man/lizards.Rd, man/newick.eg.Rd, man/randboot.Rd, man/randxval.Rd: Correct some typo 2017-01-31 Aurélie Siberchicot * man/bwca.dpcoa.Rd, man/fourthcorner.Rd, man/mafragh.Rd, man/phylog.Rd: Update bibliographic references (in press) 2017-01-23 Aurélie Siberchicot * man/bwca.dpcoa.Rd, man/julliot.Rd, man/mafragh.Rd, man/multispati.Rd, man/nipals.Rd, man/olympic.Rd, man/pcw.Rd, man/sarcelles.Rd: Solve errors in examples not runned 2017-01-18 Aurélie Siberchicot * man/area.plot.Rd, man/atya.Rd, man/avijons.Rd, man/julliot.Rd: Correct the import of functions of the suggested packages used in some examples. 2017-01-18 Aurélie Siberchicot * man/acacia.Rd, man/area.plot.Rd, man/avijons.Rd, man/between.Rd, man/butterfly.Rd, man/capitales.Rd, man/cca.Rd, man/corvus.Rd, man/doubs.Rd, man/dudi.fca.Rd, man/euro123.Rd, man/gearymoran.Rd, man/ggtortoises.Rd, man/gridrowcol.Rd, man/julliot.Rd, man/kcponds.Rd, man/lascaux.Rd, man/mafragh.Rd, man/meau.Rd, man/multispati.Rd, man/nipals.Rd, man/olympic.Rd, man/orthobasis.Rd, man/pcaivortho.Rd, man/pcw.Rd, man/plot.between.Rd, man/plot.within.Rd, man/presid2002.Rd, man/procuste.Rd, man/randEH.Rd, man/santacatalina.Rd, man/scatter.coa.Rd, man/t3012.Rd, man/trichometeo.Rd, man/westafrica.Rd, man/witwit.coa.Rd, man/zealand.Rd: Complete some T/F in TRUE/FALSE 2017-01-18 Aurélie Siberchicot * DESCRIPTION, man/area.plot.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/buech.Rd, man/butterfly.Rd, man/capitales.Rd, man/elec88.Rd, man/ggtortoises.Rd, man/irishdata.Rd, man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/mafragh.Rd, man/maples.Rd, man/mdpcoa.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/neig.Rd, man/nipals.Rd, man/olympic.Rd, man/oribatid.Rd, man/phylog.Rd, man/rhizobium.Rd, man/s.image.Rd, man/s.kde2d.Rd, man/s.logo.Rd, man/t3012.Rd, man/tintoodiel.Rd, man/vegtf.Rd, man/westafrica.Rd: 'quiet' parameter becomes 'quietly' in the 'requireNamespace' function. Add 'adephylo' in the suggested packages. Correct the import of functions of the suggested packages used in examples. 2017-01-13 Stéphane Dray * R/between.R: use weights to properly darw ellipses when non-uniform row weights are used. 2017-01-13 Stéphane Dray * R/within.R: Correct a small bug in plot of wca. Use weights to plot ellipses (this allow that ellipses are centred on 0 when coa is used). Thanks to Sylvain Dolédec. 2017-01-12 Aurélie Siberchicot * man/chats.Rd: Correct typos in a help file 2016-12-20 Aurélie Siberchicot * man/rpjdl.Rd: Correct the species number in the help file of rpjdl 2016-12-13 Aurélie Siberchicot * ChangeLog: ---------- release of ade4 1.7-5 ---------- 2016-12-13 Aurélie Siberchicot * DESCRIPTION: ---------- release of ade4 1.7-5 ---------- 2016-12-13 Aurélie Siberchicot * README.md: Add badge 2016-11-28 Aurélie Siberchicot * man/PI2newick.Rd, man/ade4.package.Rd, man/adegraphicsLoaded.Rd, man/aminoacyl.Rd, man/apqe.Rd, man/ardeche.Rd, man/as.taxo.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/aviurba.Rd, man/banque.Rd, man/baran95.Rd, man/bca.rlq.Rd, man/between.Rd, man/betweencoinertia.Rd, man/buech.Rd, man/bwca.dpcoa.Rd, man/cailliez.Rd, man/carni70.Rd, man/carniherbi49.Rd, man/casitas.Rd, man/cca.Rd, man/chatcat.Rd, man/chats.Rd, man/clementines.Rd, man/coinertia.Rd, man/combine.4thcorner.Rd, man/corkdist.Rd, man/costatis.Rd, man/costatis.randtest.Rd, man/discrimin.Rd, man/discrimin.coa.Rd, man/dist.binary.Rd, man/dist.dudi.Rd, man/dist.genet.Rd, man/dist.ktab.Rd, man/dist.neig.Rd, man/dist.prop.Rd, man/dist.quant.Rd, man/divcmax.Rd, man/dotchart.phylog.Rd, man/doubs.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.dec.Rd, man/dudi.fca.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd, man/dudi.pco.Rd, man/escopage.Rd, man/euro123.Rd, man/foucart.Rd, man/fourthcorner.Rd, man/fruits.Rd, man/gearymoran.Rd, man/granulo.Rd, man/gridrowcol.Rd, man/ichtyo.Rd, man/inertia.dudi.Rd, man/is.euclid.Rd, man/julliot.Rd, man/jv73.Rd, man/kdist.Rd, man/kdist2ktab.Rd, man/kdisteuclid.Rd, man/krandtest.Rd, man/ktab.Rd, man/ktab.data.frame.Rd, man/ktab.list.df.Rd, man/ktab.list.dudi.Rd, man/ktab.match2ktabs.Rd, man/ktab.within.Rd, man/lascaux.Rd, man/lingoes.Rd, man/macon.Rd, man/macroloire.Rd, man/mantel.rtest.Rd, man/mariages.Rd, man/mbpcaiv.Rd, man/mbpls.Rd, man/mcoa.Rd, man/mdpcoa.Rd, man/meau.Rd, man/meaudret.Rd, man/mfa.Rd, man/microsatt.Rd, man/mjrochet.Rd, man/mld.Rd, man/mollusc.Rd, man/monde84.Rd, man/morphosport.Rd, man/multiblock.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/newick.eg.Rd, man/newick2phylog.Rd, man/niche.Rd, man/nipals.Rd, man/njplot.Rd, man/originality.Rd, man/orthobasis.Rd, man/orthogram.Rd, man/ours.Rd, man/palm.Rd, man/pcaiv.Rd, man/pcaivortho.Rd, man/phylog.Rd, man/plot.between.Rd, man/plot.phylog.Rd, man/plot.within.Rd, man/procuste.Rd, man/procuste.rtest.Rd, man/pta.Rd, man/quasieuclid.Rd, man/randboot.multiblock.Rd, man/randtest.coinertia.Rd, man/randtest.pcaiv.Rd, man/reconst.Rd, man/rhone.Rd, man/rlq.Rd, man/rpjdl.Rd, man/s.match.class.Rd, man/sarcelles.Rd, man/scalewt.Rd, man/scatter.Rd, man/scatter.fca.Rd, man/scatterutil.Rd, man/sco.class.Rd, man/sco.gauss.Rd, man/sco.label.Rd, man/sco.match.Rd, man/statico.Rd, man/statico.krandtest.Rd, man/steppe.Rd, man/supcol.Rd, man/suprow.Rd, man/symbols.phylog.Rd, man/syndicats.Rd, man/t3012.Rd, man/table.phylog.Rd, man/tarentaise.Rd, man/testdim.Rd, man/testdim.multiblock.Rd, man/trichometeo.Rd, man/ungulates.Rd, man/variance.phylog.Rd, man/veuvage.Rd, man/wca.rlq.Rd, man/westafrica.Rd, man/within.Rd, man/withincoinertia.Rd, man/withinpca.Rd, man/witwit.coa.Rd, man/woangers.Rd, man/worksurv.Rd, src/adesub.c: Correct encoding of Rd files 2016-11-25 Aurélie Siberchicot * man/gearymoran.Rd, man/mafragh.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd: Update and clean 'mafragh' data 2016-11-21 Stéphane Dray * : Merge pull request #4 from zkamvar/zkamvar-patch-1 Fix bug in randtest.amova 2016-11-20 Zhian N. Kamvar * R/randtest.amova.R: fix bug in randtest.amova This bug came up in https://groups.google.com/forum/#!topic/poppr/D1gpqgQM2F0 There is no issue when comparing three hierarchical levels, but when there are four or more, the alternate hypothesis for every fourth level is incorrect due to the recycling of c("less", "greater", "greater"). 2016-10-18 Stéphane Dray * R/nipals.R: Correct a small bug identified by Denis Clot in the rescaling of sd 2016-09-27 Stéphane Dray * R/orthobasis.R: Correct a minor bug in the print method of orthobasis objects 2016-09-12 Stéphane Dray * README.md: Update homepage 2016-07-22 Stéphane Dray * man/dist.ktab.Rd: Update the doc to indicate that ordered variables are not yet considered. 2016-06-10 Stéphane Dray * : commit 7a4a263d8ac2822ee89f1cf167e4e118c03b4023 Author: Stéphane Dray Date: Fri Jun 10 15:50:04 2016 +0200 2016-05-20 Aurélie Siberchicot * .Rbuildignore, man/pcw.Rd: Update Rbuildignore 2016-05-13 Stéphane Dray * R/scatterutil.R: Correct a bug when covariance is null (ellipses were reversed) 2016-05-13 Stéphane Dray * R/dudi.pco.R: Correct a bug in the scaling of normed components with non-uniform weights 2016-05-02 Stéphane Dray * NAMESPACE, R/inertia.dudi.R, man/inertia.dudi.Rd: The function 'inertia.dudi' now becomes a method. It returns object of class 'inertia' with 'print' and 'summary' methods 2016-03-21 Stéphane Dray * man/elec88.Rd: Update the doc and add informations on nb, Spatial and Spatialcontour 2016-03-04 Stéphane Dray * NAMESPACE, R/suprow.R, man/suprow.Rd: New methods suprow.acm, suprow.mix and predict.dudi 2016-03-04 Stéphane Dray * R/dudi.hillsmith.R: Function dudi.hillsmith now returns vectors center and norm (useful for the suprow.mix function) 2016-03-01 Aurélie Siberchicot * : DESCRIPTION: ---------- release of ade4 1.7-4 ---------- 2016-02-24 Stéphane Dray * : Merge pull request #3 from Rekyt/patch-1 Correct Reference with DOI 2016-02-22 Aurélie Siberchicot * .gitignore: Add a configure file to ignore some files in the Git repository 2016-02-21 Stéphane Dray * : commit 93fe29b91eb21adeb4f08e07b432b3b61d54e07a Author: Stéphane Dray Date: Sun Feb 21 14:33:14 2016 +0100 2016-01-22 Jean Thioulouse * R/mfa.R: print.mfa print mfa object class 2015-12-16 Stéphane Dray * : commit e983689cedf4c297aae70ee4dcce8cecca1a6b54 Author: Stéphane Dray Date: Wed Dec 16 10:45:46 2015 +0100 2015-11-26 Aurélie Siberchicot * README.md: Add references to the binary packages 2015-11-24 Stéphane Dray * R/dpcoa.R: Update the plot function to represent species (and sites or their diversity according to RaoDecomp argument) 2015-11-24 Stéphane Dray * R/dpcoa.R: Correct a small bug in the handling of species names 2015-11-24 Stéphane Dray * : commit 4691e39258ac4c2f743d97f94cbc2b6d94d53ec1 Author: Stéphane Dray Date: Tue Nov 24 13:58:43 2015 +0100 2015-11-24 Stéphane Dray * R/randtest.dpcoa.R, man/randtest.dpcoa.Rd: Add new function randtest.dpcoa 2015-11-10 Stéphane Dray * DESCRIPTION: Add BugReports field 2015-11-10 Stéphane Dray * ChangeLog: ---------- release of ade4 1.7-3 ---------- 2015-11-10 Stéphane Dray * : commit 13ff73165e429972dbfaa2d44f8eaef4ca826324 Author: Stéphane Dray Date: Tue Nov 10 10:04:42 2015 +0100 2015-11-10 Stéphane Dray * DESCRIPTION: ---------- release of ade4 1.7-3 ---------- 2015-10-19 Jean Thioulouse * R/ktab.R: Change ktab.util.names to allow for ktabs with varying numbers of rows (columns) 2015-10-14 Aurélie Siberchicot * DESCRIPTION: Suggest the 'CircStats' package which is used in Rd cross-references 2015-09-21 Stéphane Dray * R/randtest-internal.R, R/randtest.discrimin.R, src/fourthcorner.c, src/tests.c: Remove some unused variables in C code 2015-09-18 Stéphane Dray * README.md: Add badges and informations for Mac and Windows users 2015-09-18 Stéphane Dray * .travis.yml: Change setting for travis(error was produced due to unchanged dates and version numbers) 2015-09-18 Stéphane Dray * .Rbuildignore, appveyor.yml: Add windows check (via appveyor) 2015-09-18 Stéphane Dray * R/mbpcaiv.R, R/mbpls.R, R/multiblock.R: Udate multiblock methods to deal with non-centred data 2015-09-18 Stéphane Dray * .Rbuildignore: Add README.md to .Rbuildignore 2015-09-15 Stéphane Dray * R/scalewt.R, man/scalewt.Rd: Correct a bug to allow scaling without centring 2015-09-09 Stéphane Dray * : Reorder the levels of season (spring as first) 2015-09-09 Stéphane Dray * R/randtest.rlq.R: Correct a bug to deal with a single trait and/or environmental variable (email by C. ter Braak 28/08/2015) 2015-09-09 Stéphane Dray * .Rbuildignore, .travis.yml, README.md: Add travis support and README 2015-08-27 Stéphane Dray * R/dudi.R: Use make.unique instead of make.names to produce row.names for outputs. The second is devoted to names (e.g., by avoiding integer which are authorized as row.names) 2015-08-26 Jean Thioulouse * R/pta.R: Modify the levels names of supTI 2015-07-15 Stéphane Dray * : Reorder the levels of the 'design' factor (use temporal instead of alphabetic order) 2015-07-02 Aurélie Siberchicot * DESCRIPTION, NAMESPACE: The default packages other than 'base' are now imported (new item for r-devel) 2015-06-12 Aurélie Siberchicot * R/dudi.fca.R, R/utilities.R: Modify the '$call' in 'dudi.fpca' 2015-06-08 Stéphane Dray * NAMESPACE, R/cca.R, man/cca.Rd: New summary method for 'cca' objects 2015-06-01 Aurélie Siberchicot * DESCRIPTION, man/add.scatter.Rd: Update an exemple which uses the new function 'plotEig' of 'adegraphics' 2015-04-14 07:38 aursiber * DESCRIPTION: ---------- release of ade4 1.7-2 ---------- 2015-04-08 13:27 aursiber * DESCRIPTION: ---------- release of ade4 1.7-1 ---------- 2015-04-08 09:25 sdray * DESCRIPTION, NAMESPACE, R/orthobasis.R, man/orthobasis.Rd: Add new functions to handle orthobasis objects. The orthobasis.listw function is removed and will be available in the forthcoming adespatial 2015-04-03 16:28 aursiber * man/kplot.sepan.Rd: The 'kplot.sepan.coa' function becomes 'kplotsepan.coa' in 'adegraphics' also 2015-04-03 14:30 aursiber * NAMESPACE, R/kplot.sepan.R, man/kplot.sepan.Rd: The 'kplot.sepan.coa' function becomes 'kplotsepan.coa' 2015-04-03 14:04 aursiber * DESCRIPTION, man/abouheif.eg.Rd, man/avijons.Rd, man/baran95.Rd, man/bsetal97.Rd, man/capitales.Rd, man/chevaine.Rd, man/cnc2003.Rd, man/doubs.Rd, man/ecomor.Rd, man/euro123.Rd, man/ggtortoises.Rd, man/hdpg.Rd, man/jv73.Rd, man/lascaux.Rd, man/lizards.Rd, man/mafragh.Rd, man/maples.Rd, man/microsatt.Rd, man/mjrochet.Rd, man/newick.eg.Rd, man/oribatid.Rd, man/pap.Rd, man/presid2002.Rd, man/procella.Rd, man/rpjdl.Rd, man/tarentaise.Rd, man/trichometeo.Rd: Remove invalid url in man files 2015-03-29 11:59 sdray * R/combine.4thcorner.R, R/plot.4thcorner.R: Update the outputs of the combine.4thcorner functions to avoid bugs when the 'D' stat can not be computed (factor with only one level) 2015-03-23 15:40 aursiber * DESCRIPTION: ---------- release of ade4 1.7-0 ---------- 2015-03-23 10:52 sdray * DESCRIPTION: Aurelie is the new official maintainer 2015-03-23 08:45 sdray * R/coinertia.R, R/rlq.R: Improve the outputs of the RLQ/coinertia analysis 2015-03-20 09:13 aursiber * DESCRIPTION, R/mbpcaiv.R, R/mbpls.R, R/multispati.R, R/orthobasis.R, R/s.image.R, R/s.kde2d.R, R/s.logo.R, man/area.plot.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/buech.Rd, man/butterfly.Rd, man/capitales.Rd, man/ecg.Rd, man/elec88.Rd, man/ggtortoises.Rd, man/irishdata.Rd, man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/mafragh.Rd, man/maples.Rd, man/mdpcoa.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/neig.Rd, man/nipals.Rd, man/olympic.Rd, man/oribatid.Rd, man/pcw.Rd, man/phylog.Rd, man/rhizobium.Rd, man/s.image.Rd, man/s.kde2d.Rd, man/s.logo.Rd, man/sarcelles.Rd, man/score.coa.Rd, man/t3012.Rd, man/tintoodiel.Rd, man/vegtf.Rd, man/westafrica.Rd: Update the use of packages listed in 'Suggests' according with R-3.1.3 2015-03-18 14:07 sdray * R/between.R: Correct a bug in 1D plot of plot.between (message of Matthieu Salpeteur 18/03/2015 on adelist) 2015-02-19 19:03 sdray * R/dist.dudi.R: Correct a bug to deal with null distances (message of Robin Cura on adelist 16/02/2015 2015-02-18 15:03 sdray * R/krandboot.R, R/krandxval.R, R/mbpcaiv.R, R/mbpls.R, R/multiblock.R, R/randxval.R, man/mbpcaiv.Rd, man/mbpls.Rd, man/multiblock.Rd, man/randboot.multiblock.Rd, man/testdim.multiblock.Rd: Update some functions related to multiblock methods. Use 'ginv' to deal with matrices are not of full rank. 2015-01-15 11:50 sdray * NAMESPACE, R/betwitdpcoa.R, man/bwca.dpcoa.Rd: Add new functions to perform between- within dpcoa (Dray et al. 2015, MER) 2015-01-09 12:35 sdray * src/adesub.c: remove the unused variable 'seed' 2015-01-08 16:47 aursiber * man/add.scatter.Rd, man/area.plot.Rd, man/atlas.Rd, man/capitales.Rd, man/chats.Rd, man/corvus.Rd, man/divcmax.Rd, man/gridrowcol.Rd, man/irishdata.Rd, man/mstree.Rd, man/orthobasis.Rd, man/pcw.Rd, man/randxval.Rd, man/rtest.Rd, man/s.class.Rd, man/s.corcircle.Rd, man/s.distri.Rd, man/s.image.Rd, man/s.label.Rd, man/s.logo.Rd, man/s.match.Rd, man/s.traject.Rd, man/s.value.Rd, man/santacatalina.Rd, man/scatterutil.Rd, man/score.Rd, man/table.value.Rd, man/toxicity.Rd, man/triangle.class.Rd, man/westafrica.Rd, man/worksurv.Rd: Modify examples due to modifications in adegraphics 2015-01-08 16:36 sdray * src/adesub.c, src/adesub.h: Remove calls to C random number generators (now use R RNG) 2015-01-08 13:59 thioulouse * NAMESPACE, R/costatis.R, R/ktab.R, R/pta.R, R/statico.R, man/costatis.Rd, man/costatis.randtest.Rd, man/statico.Rd, man/statico.krandtest.Rd: Added statico.krandtest and costatis.randtest funtions for permutation tests 2014-12-08 14:33 sdray * R/fourthcorner.R, R/fourthcorner.rlq.R, R/print.4thcorner.R: Correct a bug to display properly the outputs in the case of 1 trait x 1 env variable 2014-11-28 09:38 aursiber * man/scatter.coa.Rd: Correct the documentation of the used method in 'scatter.coa' 2014-11-14 08:42 sdray * R/mdpcoa.R: correct the call to dist.dna of the ape package 2014-11-14 08:41 sdray * NAMESPACE, R/dpcoa.R, R/mdpcoa.R, man/dpcoa.Rd, man/humDNAm.Rd: Update the dpcoa function: names of outputs are modified and the df argument shoul be a site-by-species nor a species-by-sites matrix. This allows to be more coherent with other methods 2014-11-05 15:32 sdray * man/atlas.Rd, man/butterfly.Rd, man/chats.Rd, man/dpcoa.Rd, man/gearymoran.Rd, man/gridrowcol.Rd, man/orthobasis.Rd: Modify examples due to modifications in adegraphics 2014-10-30 15:04 sdray * data/capitales.rda, man/capitales.Rd: Transform the Spatial component from SpatialPolygonsDataFrame to SpatialPolygons 2014-09-11 14:50 sdray * NAMESPACE, R/procuste.R, man/macaca.Rd, man/procuste.Rd: Change names of arguments and outputs of 'procuste' function and add a method 'randtest' for procuste class 2014-09-02 12:04 sdray * data/pcw.rda, man/pcw.Rd: Add new dataset (distribution of trees in forest plots along the panama canal) 2014-07-23 14:09 sdray * R/fourthcorner.rlq.R: Correct a small bug (used names instead of colnames on a matrix) 2014-06-18 15:26 aursiber * DESCRIPTION, NAMESPACE, man/acacia.Rd, man/add.scatter.Rd, man/aravo.Rd, man/ardeche.Rd, man/area.plot.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/avimedi.Rd, man/bacteria.Rd, man/banque.Rd, man/baran95.Rd, man/between.Rd, man/betweencoinertia.Rd, man/bf88.Rd, man/buech.Rd, man/butterfly.Rd, man/capitales.Rd, man/carni70.Rd, man/cca.Rd, man/chats.Rd, man/chazeb.Rd, man/chevaine.Rd, man/clementines.Rd, man/coinertia.Rd, man/coleo.Rd, man/corkdist.Rd, man/corvus.Rd, man/deug.Rd, man/discrimin.Rd, man/dist.prop.Rd, man/dist.quant.Rd, man/doubs.Rd, man/dpcoa.Rd, man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.fca.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd, man/ecomor.Rd, man/elec88.Rd, man/euro123.Rd, man/foucart.Rd, man/friday87.Rd, man/fruits.Rd, man/gearymoran.Rd, man/ggtortoises.Rd, man/granulo.Rd, man/gridrowcol.Rd, man/hdpg.Rd, man/housetasks.Rd, man/humDNAm.Rd, man/irishdata.Rd, man/julliot.Rd, man/jv73.Rd, man/kcponds.Rd, man/kdist2ktab.Rd, man/kdisteuclid.Rd, man/kplot.foucart.Rd, man/kplot.mcoa.Rd, man/kplot.mfa.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd, man/ktab.Rd, man/ktab.list.df.Rd, man/ktab.list.dudi.Rd, man/lascaux.Rd, man/macaca.Rd, man/macroloire.Rd, man/mafragh.Rd, man/mariages.Rd, man/meau.Rd, man/meaudret.Rd, man/microsatt.Rd, man/mollusc.Rd, man/mstree.Rd, man/multiblock.Rd, man/multispati.Rd, man/neig.Rd, man/niche.Rd, man/nipals.Rd, man/olympic.Rd, man/oribatid.Rd, man/orthobasis.Rd, man/ours.Rd, man/pcaivortho.Rd, man/plot.between.Rd, man/plot.within.Rd, man/presid2002.Rd, man/procuste.Rd, man/pta.Rd, man/rankrock.Rd, man/rpjdl.Rd, man/s.chull.Rd, man/s.image.Rd, man/s.kde2d.Rd, man/s.match.class.Rd, man/santacatalina.Rd, man/sarcelles.Rd, man/scatter.acm.Rd, man/scatter.coa.Rd, man/scatter.dudi.Rd, man/scatter.fca.Rd, man/sco.distri.Rd, man/score.acm.Rd, man/score.pca.Rd, man/seconde.Rd, man/skulls.Rd, man/statis.Rd, man/supcol.Rd, man/suprow.Rd, man/t3012.Rd, man/table.paint.Rd, man/tintoodiel.Rd, man/tortues.Rd, man/toxicity.Rd, man/triangle.plot.Rd, man/trichometeo.Rd, man/vegtf.Rd, man/wca.rlq.Rd, man/westafrica.Rd, man/within.Rd, man/withincoinertia.Rd, man/withinpca.Rd, man/witwit.coa.Rd, man/worksurv.Rd, man/zealand.Rd: Update the examples to become effective when 'adegraphics' is loaded 2014-05-20 13:30 sdray * R/add.scatter.R, man/EH.Rd, man/PI2newick.Rd, man/add.scatter.Rd, man/aminoacyl.Rd, man/amova.Rd, man/as.taxo.Rd, man/bacteria.Rd, man/between.Rd, man/betweencoinertia.Rd, man/cailliez.Rd, man/cca.Rd, man/coinertia.Rd, man/corkdist.Rd, man/disc.Rd, man/discrimin.Rd, man/discrimin.coa.Rd, man/dist.binary.Rd, man/dist.dudi.Rd, man/dist.genet.Rd, man/dist.neig.Rd, man/dist.prop.Rd, man/dist.quant.Rd, man/divc.Rd, man/divcmax.Rd, man/dotchart.phylog.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.dec.Rd, man/dudi.fca.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd, man/dudi.pco.Rd, man/foucart.Rd, man/gearymoran.Rd, man/gridrowcol.Rd, man/inertia.dudi.Rd, man/is.euclid.Rd, man/kdist.Rd, man/kdist2ktab.Rd, man/kdisteuclid.Rd, man/krandtest.Rd, man/ktab.Rd, man/ktab.data.frame.Rd, man/ktab.list.df.Rd, man/ktab.list.dudi.Rd, man/ktab.within.Rd, man/lingoes.Rd, man/mantel.randtest.Rd, man/mantel.rtest.Rd, man/mcoa.Rd, man/mfa.Rd, man/mld.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/newick.eg.Rd, man/newick2phylog.Rd, man/niche.Rd, man/nipals.Rd, man/njplot.Rd, man/optimEH.Rd, man/originality.Rd, man/orisaved.Rd, man/orthobasis.Rd, man/orthogram.Rd, man/palm.Rd, man/pcaiv.Rd, man/pcaivortho.Rd, man/phylog.Rd, man/plot.between.Rd, man/plot.phylog.Rd, man/plot.within.Rd, man/procuste.Rd, man/procuste.randtest.Rd, man/procuste.rtest.Rd, man/pta.Rd, man/quasieuclid.Rd, man/randEH.Rd, man/randtest.amova.Rd, man/randtest.between.Rd, man/randtest.coinertia.Rd, man/randtest.discrimin.Rd, man/randtest.pcaiv.Rd, man/reconst.Rd, man/rlq.Rd, man/s.logo.Rd, man/s.match.class.Rd, man/scatterutil.Rd, man/sco.class.Rd, man/sco.gauss.Rd, man/sco.label.Rd, man/sco.match.Rd, man/supcol.Rd, man/suprow.Rd, man/symbols.phylog.Rd, man/table.phylog.Rd, man/testdim.Rd, man/variance.phylog.Rd, man/westafrica.Rd, man/within.Rd, man/withincoinertia.Rd, man/withinpca.Rd, man/witwit.coa.Rd: Update email addresses 2014-05-16 15:38 sdray * NAMESPACE, R/between.R, R/within.R, man/plot.between.Rd, man/plot.within.Rd: New summary method for within and between classes 2014-05-16 15:19 sdray * R/randtest.between.R: Clean the code 2014-04-18 15:50 aursiber * R/scatterutil.R, man/area.plot.Rd, man/carni70.Rd, man/divcmax.Rd, man/dudi.acm.Rd, man/ecomor.Rd, man/julliot.Rd, man/microsatt.Rd, man/newick2phylog.Rd, man/orthogram.Rd, man/presid2002.Rd, man/score.Rd: Correct the examples which are not run 2014-04-17 15:44 sdray * NAMESPACE, R/krandboot.R, R/krandxval.R, R/mbpcaiv.R, R/mbpls.R, R/multiblock.R, R/randboot.R, R/randxval.R, man/mbpcaiv.Rd, man/mbpls.Rd, man/multiblock.Rd, man/randboot.Rd, man/randboot.multiblock.Rd, man/randxval.Rd, man/testdim.multiblock.Rd: Add new functions for multiblock analysis (coll. with S. Bougeard): multiblock pcaiv and multiblock pls. Add new functions and classes to manage results of two-fold cross-validation and bootstrap 2014-04-17 15:39 sdray * data/chickenk.rda, man/chickenk.Rd: New data set chickenk 2014-04-17 15:24 sdray * R/testdim.R, man/testdim.Rd: Change argument name for testdim method 2014-04-17 15:22 sdray * NAMESPACE, man/bacteria.Rd, man/dudi.acm.Rd, man/dudi.hillsmith.Rd, man/dudi.mix.Rd, man/santacatalina.Rd, man/scatter.coa.Rd: Unexport methods for generic functions scatter and score 2014-04-17 15:19 sdray * NAMESPACE, man/adegraphicsLoaded.Rd: Export the function adegraphicsLoaded 2014-04-17 08:19 sdray * R/utilities.R: New function 'adegraphicsLoaded' to test if adegraphics is loaded 2014-04-15 08:41 sdray * NAMESPACE, R/dudi.R, R/ktab.R, man/dudi.Rd, man/ktab.Rd: Improve '[.ktab' and add '[.dudi': extraction methods allow to select rows and/or columns of dudi and ktab objects 2014-04-15 07:44 sdray * ., NAMESPACE, R/ktab.R, R/ktab.data.frame.R, R/ktab.list.df.R, R/ktab.list.dudi.R, R/ktab.match2ktabs.R, R/ktab.within.R, man/ktab.Rd: Clean the building of TL, TC, T4 (they contain names and not numbers) and remove two bugs (building of TC and in [.ktab) 2014-04-11 07:45 sdray * R/fourthcorner.rlq.R: Correct a typo 2014-03-13 17:36 sdray * R/randtest.rlq.R, src/fourthcorner.c, src/tests.c: Correct some minor bugs and typos 2014-01-14 15:27 thioulouse * R/foucart.R, R/kplot.foucart.R, R/kplot.mcoa.R, R/kplot.mfa.R, R/kplot.pta.R, R/kplot.sepan.R, R/kplot.statis.R, R/ktab.R, R/ktab.data.frame.R, R/ktab.list.df.R, R/ktab.list.dudi.R, R/ktab.match2ktabs.R, R/ktab.within.R, R/mcoa.R, R/mdpcoa.R, R/mfa.R, R/pta.R, R/sepan.R, R/statis.R: Global update of TL TC and T4 ktab elements 2014-01-07 15:16 thioulouse * R/ktab.R, R/pta.R: row names correction of supIX and supIY in a kcoinertia pta 2013-12-03 13:22 sdray * data/mafragh.rda: Modify the order of the sites in the 'SpatialPoints' object to be coherent with the 'nb' object 2013-11-19 15:58 sdray * DESCRIPTION: ---------- release of ade4 1.6-2 ---------- 2013-11-19 15:56 sdray * NAMESPACE: Re-export some internal/utility functions that are used by other packages 2013-11-19 15:55 sdray * TITLE: Remove the TITLE file which is no more used 2013-11-15 22:41 sdray * DESCRIPTION: ---------- release of ade4 1.6-1 ---------- 2013-11-15 22:43 sdray * man/add.scatter.Rd, man/capitales.Rd, man/dist.ktab.Rd, man/dotchart.phylog.Rd, man/fourthcorner.Rd, man/nipals.Rd, man/s.match.class.Rd, man/scatter.Rd: Reduce line widths 2013-11-14 12:47 sdray * DESCRIPTION: ---------- release of ade4 1.6-0 ---------- 2013-10-30 12:23 sdray * NAMESPACE, man/acacia.Rd, man/add.scatter.Rd, man/ade4toR.Rd, man/as.taxo.Rd, man/avimedi.Rd, man/baran95.Rd, man/combine.4thcorner.Rd, man/costatis.Rd, man/fourthcorner.Rd, man/granulo.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd, man/ktab.match2ktabs.Rd, man/ktab.within.Rd, man/meau.Rd, man/meaudret.Rd, man/pcaivortho.Rd, man/phylog.Rd, man/plot.phylog.Rd, man/randtest.amova.Rd, man/reconst.Rd, man/rhone.Rd, man/rlq.Rd, man/rtest.between.Rd, man/scatterutil.Rd, man/statico.Rd, man/statis.Rd, man/supcol.Rd, man/suprow.Rd, man/taxo.eg.Rd, man/ungulates.Rd: The NAMESPACE file (which exported all functions) has be completely rewritten. Utilities and deprecated functions are not exported. S3 methods are declared. Several help pages have been modified to manage these changes. 2013-10-30 12:20 sdray * R/rtest.between.R: Now the rtest.between can handle objects created with between and bca functions 2013-10-30 12:19 sdray * R/supcol.R, R/suprow.R: suprow.default and supcol.default become suprow.dudi and supcol.dudi 2013-10-28 13:55 sdray * R/statis.R: Improve the speed of statis function. Thanks to Benoit Thieurmel (email sent 11/01/2013) 2013-10-28 12:53 sdray * R/mcoa.R: Correct a bug in the scaling of Tl1. Thanks to P. Bady, adelist 3/10/2013 2013-10-03 11:26 sdray * R/ktab.within.R: Correct a bug in ktab.within: column names were not handle correctly in some cases (Thanks to Pierre Bady, message on adelist 3/10/2013). Moreover, the order of bloc is given by levels and nor unique 2013-09-19 15:58 sdray * data/atlas.rda, data/atya.rda, data/avijons.rda, data/buech.rda, data/butterfly.rda, data/capitales.rda, data/elec88.rda, data/ggtortoises.rda, data/irishdata.rda, data/julliot.rda, data/jv73.rda, data/kcponds.rda, data/mafragh.rda, data/sarcelles.rda, data/t3012.rda, data/tintoodiel.rda, data/vegtf.rda, data/zealand.rda, man/cailliez.Rd, man/capitales.Rd, man/lingoes.Rd, man/s.logo.Rd: Correct a small bug in data files and update the help files to pass R CMD check 2013-09-19 11:39 sdray * data/atlas.rda, data/atya.rda, data/avijons.rda, data/buech.rda, data/butterfly.rda, data/capitales.rda, data/elec88.rda, data/ggtortoises.rda, data/irishdata.rda, data/julliot.rda, data/jv73.rda, data/kcponds.rda, data/mafragh.rda, data/sarcelles.rda, data/t3012.rda, data/tintoodiel.rda, data/vegtf.rda, data/zealand.rda: Add Spatial/nb objects in data files to prepare the future deprecation of area/neig/contour objects. Moreover, spatial information in data sets 't3012', 'elec88' and 'capitales' has been updated (coordinate system, city names, etc). 2013-09-17 15:08 sdray * R/scalewt.R: Correct a small bug in scalewt 2013-07-23 22:24 sdray * R/plot.4thcorner.R, man/fourthcorner.Rd: Add colors in fourthcorner plots 2013-05-28 08:10 sdray * R/scalewt.R: correct a small bug in scalewt when scale = FALSE 2013-05-07 21:45 sdray * R/combine.4thcorner.R, R/fourthcorner.R, R/fourthcorner.rlq.R, R/fourthcorner2.R, R/p.adjust.4thcorner.R, R/plot.4thcorner.R, R/print.4thcorner.R, R/summary.4thcorner.R, R/table.value.R, man/combine.4thcorner.Rd, man/fourthcorner.Rd, man/rlq.Rd, src/fourthcorner.c: Complete reimplementation of the outputs of fourthcorner functions. Now they return krandtest/randtest objects and adjustments for multiple tests can be used. Experimental fourthcorner.rlq 2013-05-07 19:51 sdray * data/aravo.rda, man/aravo.Rd: New dataset: aravo 2013-05-03 16:01 sdray * R/scatterutil.R: New argument 'bg' for scatterutil.base function 2013-04-30 21:07 sdray * R/randtest-internal.R, R/randtest.coinertia.R, R/randtest.rlq.R, R/rlq.R, man/rlq.Rd, src/adesub.c, src/adesub.h, src/testrlq.c, src/tests.c: Use the new 'dudi.type' function. New 'modeltype' argument for randtest.rlq. New function 'combine.randtest.rlq'. 2013-04-29 15:55 sdray * R/krandtest.R, man/krandtest.Rd: Update the doc of krandtest 2013-04-29 15:29 sdray * R/dudi.acm.R: Use the new fac2disj utility function 2013-04-29 15:28 sdray * R/dudi.acm.R, R/dudi.hillsmith.R, R/dudi.mix.R, R/fourthcorner.R, R/fourthcorner2.R, R/rlq.R, R/s.class.R, R/s.match.class.R, R/triangle.class.R, man/ade4-internal.Rd: Use the new fac2disj utility function 2013-04-29 13:14 sdray * R/krandtest.R: krandtest can now handle adjustments for multiple testing 2013-04-26 15:31 sdray * R/coinertia.R: Correct a small bug in the choice of the number of kept axes 2013-04-26 15:26 sdray * R/dudi.acm.R, R/utilities.R, man/ade4-internal.Rd, man/randtest-internal.Rd: New utilities functions 2013-04-26 15:03 sdray * R/scalewt.R, man/scalewt.Rd: New functions to compute weighted mean/var/cov for the levels of a factor 2013-04-26 11:38 sdray * R/dpcoa.R: dpcoa now returns 2013-04-05 12:31 sdray * DESCRIPTION: ---------- release of ade4 1.5-2 ---------- 2013-01-09 14:42 sdray * R/procuste.R, man/procuste.Rd: value 'nfact' is renamed 'nf' 2012-10-18 10:27 thioulouse * man/coinertia.Rd: Small typo fix 2012-10-18 10:26 thioulouse * R/betweencoinertia.R: Fixed a bug introduced in print.betcoi function 2012-10-17 16:29 sdray * src/tests.c: Correct a small bug in loops for the acm case 2012-10-17 15:49 sdray * R/randtest-internal.R, src/testrlq.c, src/tests.c: Clean the C code and correct a small bug (R strings were transformed in integers in C) that provokes problems on Mac OS X (thanks to Vincent Miele for his help) 2012-10-17 15:47 sdray * R/rlq.R: Correct the number of repetitions in randtest.rlq (was nrepet+1 instead of nrepet) 2012-10-16 13:32 thioulouse * R/betweencoinertia.R, R/coinertia.R, man/coinertia.Rd: Edited print functions for coinertia and betweencoinertia analyses 2012-10-16 13:30 thioulouse * R/scatter.fca.R: Bug correction in the call to s.distri: needed to be pass the xax and yax params 2012-09-21 16:02 sdray * R/sco.gauss.R: Correct a bug: dnorm has 'sd' as arguments and not 'var' (Thanks to Alice Julien-Laferriere) 2012-09-14 11:21 sdray * DESCRIPTION: ---------- release of ade4 1.5-1 ---------- 2012-09-14 11:19 sdray * R/randtest.cca.R, R/randtest.pcaiv.R, R/randtest.pcaivortho.R: Calls to Fortran routine 'dqrls' are replaced by public 'lm.wfit' 2012-07-27 14:49 sdray * R/bca.rlq.R, R/between.R, R/betweencoinertia.R, R/coinertia.R, R/corkdist.R, R/discrimin.R, R/dpcoa.R, R/dudi.R, R/dudi.acm.R, R/kplot.sepan.R, R/mcoa.R, R/multispati.R, R/niche.R, R/randtest.coinertia.R, R/randtest.discrimin.R, R/rlq.R, R/rtest.between.R, R/rtest.discrimin.R, R/scatter.acm.R, R/scatter.fca.R, R/score.acm.R, R/score.coa.R, R/score.mix.R, R/score.pca.R, R/testdim.R, R/wca.rlq.R, R/withincoinertia.R, R/witwit.R, R/witwitsepan.R: Use eval.parent(..) instead of eval(.., sys.frame(0)) to allow the call of ade4 functions inside other functions 2012-07-25 13:30 sdray * R/coinertia.R: Update the summary.coinertia function that now returns invisible results 2012-07-25 13:28 sdray * R/dudi.R: To avoid confusion, the term 'Explained' is replaced by 'Projected' in the summary.dudi function 2012-07-25 12:47 sdray * R/pcaiv.R, R/pcaivortho.R, man/pcaiv.Rd, man/pcaivortho.Rd: New functions 'summary.pcaiv' and 'summary.pcaivortho' 2012-07-25 12:46 sdray * R/dudi.R, man/dudi.Rd: New function 'summary.dudi' 2012-07-25 10:53 sdray * R/variance.phylog.R, man/variance.phylog.Rd: Returned is now an 'anova' object (was 'table') 2012-07-25 09:23 sdray * R/bca.rlq.R, R/between.R, R/betweencoinertia.R, R/coinertia.R, R/discrimin.R, R/dpcoa.R, R/dudi.R, R/foucart.R, R/ktab.R, R/mcoa.R, R/mfa.R, R/multispati.R, R/niche.R, R/nipals.R, R/pcaiv.R, R/pcaivortho.R, R/pta.R, R/rlq.R, R/sepan.R, R/statis.R, R/variance.phylog.R, R/wca.rlq.R, R/within.R, R/withincoinertia.R, R/witwit.R: Outputs produced by print.* functions are now matrices (were table) 2012-07-10 12:03 thioulouse * R/coinertia.R: Fix the problem of complex eigenvalues sometimes returned by eigen in the case n < (p, q) 2012-06-01 07:23 jombart * R/orthogram.R, man/ade4-deprecated.Rd, man/orthogram.Rd: Orthogram function is now deprecated. 2012-04-23 12:29 sdray * src/testdim.c: Correct a small bug (void function cannot return values) 2012-04-23 07:59 sdray * man/neig.Rd: Modify an example due to a change in the deldir package 2012-04-19 11:11 sdray * DESCRIPTION: ---------- release of ade4 1.5-0 ---------- 2012-04-17 15:23 sdray * R/bca.rlq.R, R/wca.rlq.R, data/piosphere.rda, man/bca.rlq.Rd, man/piosphere.Rd, man/wca.rlq.Rd: Add functions/data for partial RLQ analysis proposed by Wesuls et al (2012) 2012-04-16 13:06 sdray * R/ade4toR.R, R/amova.R, R/area.plot.R, R/between.R, R/betweencoinertia.R, R/cailliez.R, R/coinertia.R, R/corkdist.R, R/costatis.R, R/discrimin.R, R/dist.quant.R, R/dotcircle.R, R/dpcoa.R, R/dudi.acm.R, R/dudi.hillsmith.R, R/dudi.pco.R, R/foucart.R, R/gearymoran.R, R/is.euclid.R, R/kdisteuclid.R, R/kplot.foucart.R, R/kplot.mcoa.R, R/kplot.mfa.R, R/kplot.pta.R, R/kplot.sepan.R, R/kplot.statis.R, R/lingoes.R, R/mcoa.R, R/mdpcoa.R, R/mfa.R, R/multispati.R, R/neig.R, R/newick2phylog.R, R/niche.R, R/nipals.R, R/orthobasis.R, R/orthogram.R, R/pcaiv.R, R/pcaivortho.R, R/plot.phylog.R, R/procuste.R, R/pta.R, R/quasieuclid.R, R/rlq.R, R/s.arrow.R, R/s.corcircle.R, R/s.hist.R, R/s.kde2d.R, R/s.match.R, R/s.multinom.R, R/s.traject.R, R/s.value.R, R/scatter.acm.R, R/scatter.coa.R, R/scatter.dudi.R, R/scatter.fca.R, R/scatterutil.R, R/sco.quant.R, R/score.acm.R, R/score.mix.R, R/sepan.R, R/statis.R, R/symbols.phylog.R, R/table.cont.R, R/table.dist.R, R/table.paint.R, R/table.phylog.R, R/table.value.R, R/triangle.plot.R, R/within.R, R/withincoinertia.R, R/witwit.R, R/witwitsepan.R: Use full argument names to avoid partial matching 2012-04-07 21:29 sdray * DESCRIPTION: ---------- release of ade4 1.4-18 ---------- 2012-04-07 21:16 sdray * R/testdim.R, src/testdim.c: Modify testdim functions to avoid calls to 'exit' in C code 2012-04-07 21:13 sdray * NAMESPACE, R/ade4.R: Remove .FirstLib and use NAMESPACE (UseDynLib) to load DLL 2012-04-02 16:23 sdray * data/bacteria.rda, data/capitales.rda, data/elec88.rda, data/hdpg.rda, data/irishdata.rda, data/lascaux.rda, data/mafragh.rda, data/perthi02.rda, data/tarentaise.rda, data/vegtf.rda: resave some data files to improve file compression 2012-03-16 05:55 sdray * DESCRIPTION: Update email addresses 2012-01-20 12:45 jombart * DESCRIPTION, NAMESPACE: Added a namespace (the default one generated by R 2.14.1) to ensure compatibility with older R release. Now stating the dependency on R >= 2.10 in DESCRIPTION. 2011-11-07 15:21 sdray * R/mantel.rtest.R: Improve the performance (speed) of the permutation procedure (suggestion by Josh Wiley jwiley.psych at gmail.com) 2011-05-11 11:31 sdray * INDEX: Delete INDEX file so that it would be generated and updated automatically 2011-04-22 11:13 sdray * R/randtest.between.R, man/randtest.between.Rd: Update the function to deal with objects created by the new bca function 2011-04-11 14:23 sdray * DESCRIPTION: ---------- release of ade4 1.4-17 ---------- 2011-04-07 12:00 sdray * R/pcaiv.R: Correct a bug: intercept is not included in 'cor' to avoid a warning produced by scalewt 2011-04-07 11:32 sdray * R/mfa.R, man/mfa.Rd, man/statis.Rd: Correct the documentation (suggestion by D. Laloe) and improve the code of mfa (use of match.arg to consider the argument 'option' 2011-04-07 11:10 sdray * R/withinpca.R, man/withinpca.Rd: Improve the documentation (suggestion by L. Dubroca on adelist 01/03/2011) and the code (suggestion by D. Laloe) 2011-04-07 07:45 sdray * R/between.R, R/betweencoinertia.R, R/within.R, R/withincoinertia.R, man/between.Rd, man/betweencoinertia.Rd, man/plot.between.Rd, man/plot.within.Rd, man/within.Rd, man/withincoinertia.Rd: Functions within, withincoinertia, betwee, betweencoinertia are now deprecated to avoid a conflict names with the base:::within. New generic bca, wca with methods bca.dudi, bca.coinertia, wca.dudi and wca.coinertia should be used instead. 2011-04-06 16:06 sdray * man/scatter.Rd: Correct a typo 2011-04-06 16:06 sdray * man/scatter.Rd: Add the doc for the 'main' argument 2011-04-06 14:33 sdray * R/dudi.R, man/scatter.Rd: New generic functions 'biplot' and 'screeplot' to plot the outputs of an analysis (class dudi) 2011-02-24 14:11 sdray * data/macroloire.rda, data/rhizobium.rda, data/woangers.rda: Compress some ASCII data files 2011-02-24 14:00 sdray * R/quasieuclid.R: Attributes of the original dist object are preserved 2011-02-24 13:55 sdray * R/cailliez.R, R/lingoes.R, man/cailliez.Rd, man/lingoes.Rd: Add an argument to correct (or not) null distances 2011-02-24 13:47 sdray * R/is.euclid.R: Add a warning for null distances 2010-09-27 14:42 sdray * man/corvus.Rd: Correct a typo concerning the units of two variables (cm -> mm). Thanks to Peter Saly 2010-08-18 15:25 sdray * ChangeLog: ---------- release of ade4 1.4-16 ---------- 2010-08-18 15:10 sdray * DESCRIPTION: ---------- release of ade4 1.4-16 ---------- 2010-05-08 05:41 thioulouse * data/meaudret.rda: Updated meaudret environmental dataframe names 2010-05-06 16:16 sdray * man/triangle.class.Rd: Remove auto-generated content in the documentation 2010-04-29 14:49 sdray * R/s.class.R: argument 'pch' is now recycled so that one symbol could be assigned to each point. Thanks to Vincent Le Garrec for his question. 2010-04-12 08:10 sdray * man/dist.binary.Rd: Correct some bibliographic references. Thanks to Pierre Legendre. 2010-03-19 13:19 sdray * R/dist.ktab.R: Correct a small bug in the ldist.ktab function 2010-03-10 09:13 thioulouse * man/ktab.match2ktabs.Rd: removed deprecated email address in ktab.match2ktabs documentation file 2010-03-05 15:06 jombart * R/scalewt.R: Fixed a bug in the scaling of multivariate data using scalewt: when units of the variable were too heterogeneous, variables with the smallest variances were not scaled. This did not affect dudi.pca, but other functions such as discrimin. 2010-02-10 12:12 sdray * man/rlq.Rd: Correct a typo in the description 2010-02-10 12:00 sdray * man/rlq.Rd: Correct a typo in the description 2009-12-18 08:46 sdray * man/fourthcorner.Rd: Add information on the outputs of the print and summary functions 2009-12-09 14:49 sdray * man/banque.Rd, man/dudi.fca.Rd, man/fruits.Rd, man/meau.Rd, man/meaudret.Rd, man/monde84.Rd, man/ours.Rd, man/rhizobium.Rd, man/woangers.Rd, man/worksurv.Rd: Correct the use of the command '\item' in '\enumerate' environment 2009-12-04 13:33 sdray * R/plot.4thcorner.R, man/fourthcorner.Rd, src/fourthcorner.c: The argument 'type' in plot.4thcorner can now takes the value D2 to plot correlation instead of homogeneity statistics in the case of qualitative / quantitative association 2009-12-04 13:28 sdray * man/dist.ktab.Rd, man/woangers.Rd: Put some examples in '\dontrun' to speed up the checking of example 2009-12-03 13:27 sdray * ChangeLog: ---------- release of ade4 1.4-14 ---------- 2009-12-03 13:22 sdray * DESCRIPTION: ---------- release of ade4 1.4-14 ---------- 2009-12-01 10:01 sdray * DESCRIPTION, man/area.plot.Rd, man/neig.Rd, man/oribatid.Rd: Use the package 'deldir' instead of 'tripack' which has serious license issues. Correct the use of the class polylist which is not exported in the new version of maptools (0.7-27) 2009-11-12 12:08 thioulouse * R/costatis.R: changes to the costatis function to remove cat outputs in non-interactive mode (i.e., when scannf = FALSE) 2009-11-12 08:40 sdray * R/s.match.class.R, man/s.match.class.Rd: Add new function 's.match.class' to represent two systems of coordinates and a partitioning 2009-11-12 08:38 sdray * R/betweencoinertia.R, R/withincoinertia.R, man/betweencoinertia.Rd, man/withincoinertia.Rd: Add new functions 'betweencoinertia' and 'withincoinertia' for between- and within-coinertia analysis 2009-11-09 12:06 thioulouse * R/costatis.R, R/statico.R, man/costatis.Rd, man/statico.Rd, man/wgcoia.Rd: New functions to perform STATICO and CO-STATIS 2009-10-30 08:49 sdray * R/kdisteuclid.R: Use 'match.arg' to evaluate the value of the 'method' argument 2009-10-29 08:56 sdray * DESCRIPTION: ---------- release of ade4 1.4-13 ---------- 2009-10-28 15:29 abdufour * data/meaudret.rda: addition of the species names in the dataset 2009-10-28 15:08 abdufour * man/meau.Rd, man/meaudret.Rd: information about the link between the two datasets meau and meaudret has been added 2009-10-28 14:13 sdray * R/phylog.R, R/plot.phylog.R: Correct bug in the use of basic regular expressions (argument 'extended' is deprecated R 2.11.0) 2009-10-27 14:50 spavoine * R/originality.R, man/originality.Rd: new methods have been added in the originality function 2009-10-27 14:08 spavoine * data/woangers.rda, man/woangers.Rd, man/rhizobium.Rd, data/rhizobium.rda, data/macroloire.rda, man/macroloire.Rd: three new data sets added 2009-10-27 14:05 spavoine * R/dist.ktab.R, man/dist.ktab.Rd: new functions of distance for multiple types of variables 2009-10-27 14:01 spavoine * R/apqe.R, man/apqe.Rd: new functions for diversity partitioning 2009-10-27 13:59 spavoine * R/mdpcoa.R, man/mdpcoa.Rd: new functions for multiple dpcoa 2009-10-23 12:21 sdray * ChangeLog: ---------- release of ade4 1.4-12 ---------- 2009-10-23 12:19 sdray * DESCRIPTION: ---------- release of ade4 1.4-12 ---------- 2009-10-21 14:18 sdray * data/toxicity.rda, man/toxicity.Rd: Correct species names and table dimensions (thanks to Jean Lobry) 2009-10-21 13:34 thioulouse * R/dudi.R: bug on row.names in as.dudi (thanks to Jean Lobry) 2009-10-20 14:18 sdray * R/newick2phylog.R: Correct bug in the use of basic regular expressions 2009-10-20 14:15 sdray * man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd: update links to spdep functions in the documentation 2009-10-02 09:07 simonpenel * R/newick2phylog.R, man/s.value.Rd, man/variance.phylog.Rd: Minor bugs have been fixes. Replace extended = FALSE by fixed = TRUE 2009-09-22 08:10 thioulouse * man/scatter.dudi.Rd: added some precision about biplots in scatter.dudi.Rd 2009-07-24 14:53 thioulouse * R/pta.R: corrected a small bug in row names of supIX and supIY df 2009-05-11 09:19 sdray * R/dist.binary.R, man/dist.binary.Rd: Numeric matrix can be used for the 'df' argument (request of E. Paradis) 2009-04-20 15:53 sdray * R/area.plot.R: argument nclasslegend is now active. bug identified by C. Calenge 2009-04-01 11:11 sdray * ChangeLog: ---------- release of ade4 1.4-11 ---------- 2009-04-01 11:07 sdray * DESCRIPTION: ---------- release of ade4 1.4-11 ---------- 2009-03-26 14:14 sdray * man/buech.Rd, man/corvus.Rd, man/dist.binary.Rd, man/dist.prop.Rd, man/dist.quant.Rd, man/kplot.mcoa.Rd, man/kplot.pta.Rd, man/ktab.Rd, man/maples.Rd, man/mcoa.Rd, man/mfa.Rd, man/njplot.Rd, man/orthogram.Rd, man/phylog.Rd, man/randtest.coinertia.Rd, man/scatter.fca.Rd, man/scatterutil.Rd, man/supcol.Rd, man/withinpca.Rd: Make Rd files pass R-2.9.0 (devel) parser 2 checks 2009-02-03 12:39 abdufour * man/randEH.Rd: replace PD in EH 2009-02-03 12:32 abdufour * man/optimEH.Rd: replace PD in EH 2008-12-12 14:04 sdray * ChangeLog: ---------- release of ade4 1.4-10 ---------- 2008-12-12 14:03 sdray * DESCRIPTION: ---------- release of ade4 1.4-10 ---------- 2008-12-11 14:45 sdray * R/combine.4thcorner.R, R/fourthcorner.R, R/fourthcorner2.R, R/plot.4thcorner.R, R/print.4thcorner.R, R/summary.4thcorner.R, man/fourthcorner.Rd, src/fourthcorner.c: new functions implementing the fourthcorner method and extensions presented in Dray and Legendre (2008) 2008-12-11 13:23 sdray * src/adesub.c, src/adesub.h, src/testdim.c: new functions to permute matrices used in testdim and fourthcorner are now in adesub 2008-12-11 13:14 sdray * man/RVdist.randtest.Rd, man/randtest-internal.Rd, man/scatterutil.Rd: remove empty sections 2008-12-11 13:05 sdray * man/dudi.fca.Rd: add a second argument to the \item macro 2008-12-11 13:04 sdray * man/witwit.coa.Rd: remove invalid whitespaces 2008-12-01 15:34 jombart * R/gearymoran.R: small typo repared 2008-12-01 15:19 jombart * R/gearymoran.R: Added a match.arg to gearymoran (in multivariate case, was messed up. 2008-06-30 10:55 sdray * R/niche.R: Add a global test of the average marginality for all species 2008-06-13 10:33 jombart * R/dudi.acm.R, R/dudi.coa.R, R/dudi.dec.R, R/dudi.fca.R, R/dudi.hillsmith.R, R/dudi.mix.R, R/dudi.nsc.R, R/dudi.pca.R: Added a as.data.frame(df) to dudi methods. 2008-06-11 11:04 sdray * data/abouheif.eg.rda: new data files 2008-06-11 10:59 sdray * data/acacia.rda, data/aminoacyl.rda, data/apis108.rda, data/ardeche.rda, data/arrival.rda, data/atlas.rda, data/atya.rda, data/avijons.rda, data/avimedi.rda, data/aviurba.rda, data/bacteria.rda, data/banque.rda, data/baran95.rda, data/bf88.rda, data/bordeaux.rda, data/bsetal97.rda, data/buech.rda, data/butterfly.rda, data/capitales.rda, data/carni19.rda, data/carni70.rda, data/carniherbi49.rda, data/casitas.rda, data/chatcat.rda, data/chats.rda, data/chazeb.rda, data/chevaine.rda, data/clementines.rda, data/cnc2003.rda, data/coleo.rda, data/corvus.rda, data/deug.rda, data/doubs.rda, data/dunedata.rda, data/ecg.rda, data/ecomor.rda, data/elec88.rda, data/escopage.rda, data/euro123.rda, data/fission.rda, data/friday87.rda, data/fruits.rda, data/ggtortoises.rda, data/granulo.rda, data/hdpg.rda, data/housetasks.rda, data/humDNAm.rda, data/ichtyo.rda, data/irishdata.rda, data/julliot.rda, data/jv73.rda, data/kcponds.rda, data/lascaux.rda, data/lizards.rda, data/macaca.rda, data/macon.rda, data/mafragh.rda, data/maples.rda, data/mariages.rda, data/meau.rda, data/meaudret.rda, data/microsatt.rda, data/mjrochet.rda, data/mollusc.rda, data/monde84.rda, data/morphosport.rda, data/newick.eg.rda, data/njplot.rda, data/olympic.rda, data/oribatid.rda, data/ours.rda, data/palm.rda, data/pap.rda, data/perthi02.rda, data/presid2002.rda, data/procella.rda, data/rankrock.rda, data/rhone.rda, data/rpjdl.rda, data/santacatalina.rda, data/sarcelles.rda, data/seconde.rda, data/skulls.rda, data/steppe.rda, data/syndicats.rda, data/t3012.rda, data/tarentaise.rda, data/taxo.eg.rda, data/tintoodiel.rda, data/tithonia.rda, data/tortues.rda, data/toxicity.rda, data/trichometeo.rda, data/ungulates.rda, data/vegtf.rda, data/veuvage.rda, data/westafrica.rda, data/worksurv.rda, data/yanomama.rda, data/zealand.rda: new data files 2008-06-11 10:58 sdray * data/abouheif.eg.rda, data/acacia.rda, data/aminoacyl.rda, data/apis108.rda, data/ardeche.rda, data/arrival.rda, data/atlas.rda, data/atya.rda, data/avijons.rda, data/avimedi.rda, data/aviurba.rda, data/bacteria.rda, data/banque.rda, data/baran95.rda, data/bf88.rda, data/bordeaux.rda, data/bsetal97.rda, data/buech.rda, data/butterfly.rda, data/capitales.rda, data/carni19.rda, data/carni70.rda, data/carniherbi49.rda, data/casitas.rda, data/chatcat.rda, data/chats.rda, data/chazeb.rda, data/chevaine.rda, data/clementines.rda, data/cnc2003.rda, data/coleo.rda, data/corvus.rda, data/deug.rda, data/doubs.rda, data/dunedata.rda, data/ecg.rda, data/ecomor.rda, data/elec88.rda, data/escopage.rda, data/euro123.rda, data/fission.rda, data/friday87.rda, data/fruits.rda, data/ggtortoises.rda, data/granulo.rda, data/hdpg.rda, data/housetasks.rda, data/humDNAm.rda, data/ichtyo.rda, data/irishdata.rda, data/julliot.rda, data/jv73.rda, data/kcponds.rda, data/lascaux.rda, data/lizards.rda, data/macaca.rda, data/macon.rda, data/mafragh.rda, data/maples.rda, data/mariages.rda, data/meau.rda, data/meaudret.rda, data/microsatt.rda, data/mjrochet.rda, data/mollusc.rda, data/monde84.rda, data/morphosport.rda, data/newick.eg.rda, data/njplot.rda, data/olympic.rda, data/oribatid.rda, data/ours.rda, data/palm.rda, data/pap.rda, data/perthi02.rda, data/presid2002.rda, data/procella.rda, data/rankrock.rda, data/rhone.rda, data/rpjdl.rda, data/santacatalina.rda, data/sarcelles.rda, data/seconde.rda, data/skulls.rda, data/steppe.rda, data/syndicats.rda, data/t3012.rda, data/tarentaise.rda, data/taxo.eg.rda, data/tintoodiel.rda, data/tithonia.rda, data/tortues.rda, data/toxicity.rda, data/trichometeo.rda, data/ungulates.rda, data/vegtf.rda, data/veuvage.rda, data/westafrica.rda, data/worksurv.rda, data/yanomama.rda, data/zealand.rda: remove corrupted data files 2008-06-10 14:12 sdray * ChangeLog, DESCRIPTION, INDEX, R, TITLE, data, inst, man, src: move from trunk to pkg after initial import using cvs2svn 2008-06-10 14:01 sdray * man: remove man folder 2008-06-10 14:01 sdray * R: remove R folder 2008-06-10 14:12 sdray * ChangeLog, DESCRIPTION, INDEX, R, TITLE, data, inst, man, src: move from trunk to pkg after initial import using cvs2svn 2008-05-23 14:12 dray * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-9 ---------- 2008-05-23 12:12 dray * R/niche.R: Correct a syntax error 2008-05-23 12:00 dray * R/mantel.randtest.R, R/procuste.randtest.R: Correct a bug. The number of repetitions was not correct ((nrepet + 1) instead of nrepet) 2008-05-23 11:53 dray * R/niche.R, R/randtest.between.R, R/randtest.coinertia.R, R/randtest.discrimin.R: Correct a bug. The number of repetitions was not correct ((nrepet + 1) instead of nrepet) 2008-05-23 11:46 dray * R/krandtest.R, R/randtest.amova.R, man/krandtest.Rd: the class krandtest now accepts a vector of alternative hypotheses instead of a common alternative hypothesis for the k tests (email of Kim Milferstedt on RHelp) 2008-05-16 13:54 dray * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-8 ---------- 2008-05-07 11:29 jthioulo * R/dudi.acm.R: bug correction (mail of JR Lobry on adelist): (any(row.w) < 0) vs. (any(row.w < 0)) 2008-05-07 11:27 jthioulo * R/dudi.R: bug correction (mail of JR Lobry on adelist): any(col.w) < 0 vs. any(col.w < 0) 2008-04-18 14:37 penel * data/ggtortoises.rda: pixmap S3 objects transformed into S4 class 2008-04-18 13:33 dray * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-7 ---------- 2008-04-18 13:31 dray * data/capitales.rda: pixmap S3 objects transformed into S4 class 2008-04-17 11:05 dray * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-6 ---------- 2008-04-16 17:02 dray * R/phylog.R: Correct a bug in phylog.extract (mail of S. Ollier) 2008-04-16 16:36 dray * src/adesub.c, src/adesub.h, src/testrlq.c: matcentragehi in now in adesub 2008-04-16 16:33 dray * R/nipals.R, man/nipals.Rd: New function for NIPALS algorithm, i.e. PCA with (or without) NA 2008-04-16 16:31 dray * man/randtest.Rd: add some words about the computation of pvalues for two-sided test 2008-04-16 13:18 dufour * man/ade4.package.Rd: *** empty log message *** 2008-04-16 10:12 dufour * man/pcaiv.Rd: *** empty log message *** 2008-04-14 12:41 penel * man/table.phylog.Rd: Example table.phylog set to dontrun 2008-04-02 11:16 dray * man/multispati.Rd, man/vegtf.Rd: Update the source reference: Dray et al. (2008) 2008-03-27 14:28 dufour * man/dudi.pca.Rd: Modifications : explanations about values (cent and norm) ; it{} into emph{}. 2008-03-27 13:47 dufour * man/dudi.pca.Rd: Modification of explanations ($cent and $norm) 2008-03-26 10:29 dray * R/sco.distri.R: correct a bug (identified by S. Pavoine): default label argument was badly considered when one column contains only O's 2008-03-20 15:10 dray * R/scatter.R, R/scatterutil.R, man/scatter.Rd, man/scatterutil.Rd: New utility function scatterutil.sco and scatterutil.convrot90 for 1D graphical representation 2008-03-20 15:06 dray * R/sco.gauss.R, man/sco.gauss.Rd: New function sco.gauss for 1D graphical representation 2008-03-20 15:05 dray * R/sco.match.R, man/sco.match.Rd: New function sco.match for 1D graphical representation 2008-03-20 15:05 dray * R/sco.class.R, man/sco.class.Rd: New function sco.class for 1D graphical representation 2008-03-20 15:05 dray * R/sco.label.R, man/sco.label.Rd: New function sco.label for 1D graphical representation 2008-03-19 16:00 dray * R/sco.qual.R: Functions of this file are now in sco.label.R and sco.gauss.R 2008-03-18 14:18 dray * inst/CITATION: Add two new references to the CITATION file 2008-03-17 15:47 dray * R/randtest.cca.R, R/randtest.pcaiv.R, R/randtest.pcaivortho.R, man/randtest.pcaiv.Rd: News functions for permutation tests in constrained analysis 2008-02-05 13:26 dray * src/testdim.c: Correct a bug in memory allocation of the function svdd 2008-01-29 15:07 jthioulo * man/sco.label.Rd: added function: Draws evenly spaced labels, each label linked to the corresponding value of a numeric score 2008-01-29 15:07 jthioulo * man/sco.gauss.Rd: added function: Draws Gauss curves with the same mean and variance as the scores of indivivuals belonging to categories of several factors 2008-01-29 15:04 jthioulo * man/veuvage.Rd: Correstion of illegal accented character in exemple code 2008-01-29 15:04 jthioulo * R/sco.qual.R: adds two functions: sco.gauss and sco.label (draw Gauss curves on a score by categories of several factors) 2007-11-09 17:19 dray * R/newick2phylog.R: Correct a bug. In newick2phylog.addtools, eigen does not return an orthogonal basis when there are null eigenvalues (Wscores). Vectors are now orthogonalized using qr 2007-10-16 14:41 penel * DESCRIPTION: Change License to GPL (>=2) 2007-10-16 14:35 penel * ChangeLog: *** empty log message *** 2007-10-12 11:37 penel * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-5 ---------- 2007-10-11 15:50 penel * man/dunedata.Rd, man/steppe.Rd: Replace non_function by Doctype 2007-10-09 10:54 penel * src/testdim.c, src/tests.c: Correction of a bug in the declaration of variables 2007-09-25 11:16 dray * ChangeLog: ---------- release of ade4 1.4-4 ---------- 2007-09-25 11:10 dray * DESCRIPTION: ---------- release of ade4 1.4-4 ---------- 2007-09-20 15:48 dray * R/coinertia.R, R/dudi.R, R/dudi.pco.R: Modification of the call of the imported function chooseaxes for the use of the ade4TkGUI package 2007-09-17 16:23 dray * R/within.pca.R, R/withinpca.R, man/ktab.Rd, man/ktab.match2ktabs.Rd, man/pta.Rd, man/statis.Rd, man/within.pca.Rd, man/withinpca.Rd: The function within.pca is renamed withinpca 2007-09-17 15:12 dray * R/ktab.R, man/ktab.Rd: Change the names of the arguments of the function '[.ktab' 2007-09-17 13:05 dray * man/amova.Rd, man/between.Rd, man/coinertia.Rd, man/corkdist.Rd, man/discrimin.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd, man/dudi.pco.Rd, man/foucart.Rd, man/is.euclid.Rd, man/kplot.foucart.Rd, man/kplot.mcoa.Rd, man/kplot.mfa.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd, man/krandtest.Rd, man/ktab.Rd, man/mcoa.Rd, man/mfa.Rd, man/multispati.Rd, man/neig.Rd, man/niche.Rd, man/orthobasis.Rd, man/pcaiv.Rd, man/phylog.Rd, man/plot.phylog.Rd, man/procuste.Rd, man/pta.Rd, man/randtest.Rd, man/randtest.amova.Rd, man/randtest.between.Rd, man/randtest.coinertia.Rd, man/randtest.discrimin.Rd, man/reconst.Rd, man/rlq.Rd, man/rtest.Rd, man/rtest.between.Rd, man/rtest.discrimin.Rd, man/scatter.acm.Rd, man/scatter.coa.Rd, man/scatter.dudi.Rd, man/scatter.fca.Rd, man/score.acm.Rd, man/score.coa.Rd, man/score.mix.Rd, man/score.pca.Rd, man/sepan.Rd, man/statis.Rd, man/supcol.Rd, man/suprow.Rd, man/testdim.Rd, man/within.Rd, man/witwit.coa.Rd: Correct usage entries for S3 methods 2007-09-14 11:58 jthioulo * DESCRIPTION: suggests ade4TkGUI 2007-09-14 09:15 jthioulo * R/randtest.between.R: modif eval pour ne pas chercher dans l'environnement global directement 2007-09-13 11:57 dray * src/Makevars: replace CRLF (DOS) by LF (Unix) 2007-09-13 11:18 jthioulo * R/coinertia.R, R/dudi.R, R/dudi.pco.R: modif pour variable globale ade4TkGUIFlag 2007-09-06 17:08 dray * man/PI2newick.Rd, man/RV.rtest.Rd, man/RVdist.randtest.Rd, man/aminoacyl.Rd, man/ardeche.Rd, man/area.plot.Rd, man/as.taxo.Rd, man/atlas.Rd, man/atya.Rd, man/avijons.Rd, man/aviurba.Rd, man/baran95.Rd, man/between.Rd, man/bicenter.wt.Rd, man/buech.Rd, man/cailliez.Rd, man/carni70.Rd, man/casitas.Rd, man/cca.Rd, man/chatcat.Rd, man/chats.Rd, man/clementines.Rd, man/coinertia.Rd, man/corkdist.Rd, man/discrimin.Rd, man/discrimin.coa.Rd, man/dist.binary.Rd, man/dist.dudi.Rd, man/dist.genet.Rd, man/dist.neig.Rd, man/dist.prop.Rd, man/dist.quant.Rd, man/divcmax.Rd, man/dotchart.phylog.Rd, man/dotcircle.Rd, man/doubs.Rd, man/dpcoa.Rd, man/dudi.Rd, man/dudi.acm.Rd, man/dudi.coa.Rd, man/dudi.dec.Rd, man/dudi.fca.Rd, man/dudi.mix.Rd, man/dudi.nsc.Rd, man/dudi.pca.Rd, man/dudi.pco.Rd, man/escopage.Rd, man/euro123.Rd, man/fruits.Rd, man/fuzzygenet.Rd, man/gearymoran.Rd, man/genet.Rd, man/granulo.Rd, man/gridrowcol.Rd, man/ichtyo.Rd, man/inertia.dudi.Rd, man/is.euclid.Rd, man/julliot.Rd, man/jv73.Rd, man/kdist.Rd, man/kdist2ktab.Rd, man/kdisteuclid.Rd, man/kplot.foucart.Rd, man/kplot.mcoa.Rd, man/kplot.mfa.Rd, man/kplot.pta.Rd, man/kplot.sepan.Rd, man/kplot.statis.Rd, man/ktab.Rd, man/ktab.data.frame.Rd, man/ktab.list.df.Rd, man/ktab.list.dudi.Rd, man/ktab.match2ktabs.Rd, man/ktab.within.Rd, man/lascaux.Rd, man/lingoes.Rd, man/macon.Rd, man/mafragh.Rd, man/mantel.rtest.Rd, man/mariages.Rd, man/mcoa.Rd, man/meau.Rd, man/meaudret.Rd, man/mfa.Rd, man/microsatt.Rd, man/mjrochet.Rd, man/mld.Rd, man/mollusc.Rd, man/monde84.Rd, man/morphosport.Rd, man/mstree.Rd, man/multispati.Rd, man/multispati.randtest.Rd, man/multispati.rtest.Rd, man/neig.Rd, man/newick.eg.Rd, man/newick2phylog.Rd, man/niche.Rd, man/njplot.Rd, man/orthobasis.Rd, man/orthogram.Rd, man/ours.Rd, man/palm.Rd, man/pcaiv.Rd, man/pcaivortho.Rd, man/pcoscaled.Rd, man/phylog.Rd, man/plot.phylog.Rd, man/procuste.Rd, man/procuste.rtest.Rd, man/pta.Rd, man/quasieuclid.Rd, man/reconst.Rd, man/rhone.Rd, man/rpjdl.Rd, man/rtest.Rd, man/rtest.between.Rd, man/rtest.discrimin.Rd, man/s.arrow.Rd, man/s.chull.Rd, man/s.class.Rd, man/s.corcircle.Rd, man/s.distri.Rd, man/s.hist.Rd, man/s.image.Rd, man/s.kde2d.Rd, man/s.label.Rd, man/s.logo.Rd, man/s.match.Rd, man/s.multinom.Rd, man/s.traject.Rd, man/s.value.Rd, man/sarcelles.Rd, man/scalewt.Rd, man/scatter.Rd, man/scatter.acm.Rd, man/scatter.coa.Rd, man/scatter.dudi.Rd, man/scatter.fca.Rd, man/sco.boxplot.Rd, man/sco.distri.Rd, man/sco.quant.Rd, man/score.Rd, man/score.acm.Rd, man/score.coa.Rd, man/score.mix.Rd, man/score.pca.Rd, man/sepan.Rd, man/statis.Rd, man/steppe.Rd, man/supcol.Rd, man/suprow.Rd, man/symbols.phylog.Rd, man/t3012.Rd, man/table.cont.Rd, man/table.dist.Rd, man/table.paint.Rd, man/table.phylog.Rd, man/table.value.Rd, man/tarentaise.Rd, man/triangle.class.Rd, man/triangle.plot.Rd, man/trichometeo.Rd, man/ungulates.Rd, man/uniquewt.df.Rd, man/variance.phylog.Rd, man/veuvage.Rd, man/westafrica.Rd, man/within.Rd, man/within.pca.Rd, man/witwit.coa.Rd, man/worksurv.Rd: Added the encoding of Rd files and remove the email of Daniel Chessel (he is retired) 2007-09-06 15:11 dray * R/scatter.acm.R: Clean R files: replace T by TRUE. 2007-09-06 15:03 dray * R/newick2phylog.R: Clean R files: remove multiple function definitions (floc1(s) becomes floc1,floc2,floc3. Thanks to UsagePackageCheck of codetools 2007-09-06 14:55 dray * R/multispati.R, R/multispati.randtest.R, R/multispati.rtest.R, R/neig.R, R/orthobasis.R, R/s.image.R, R/s.kde2d.R, R/s.logo.R: Clean R files: correct imported function definition. Thanks to UsagePackageCheck of codetools 2007-09-06 13:53 dray * R/orthogram.R: Correct a bug: test for the choice between orthobas, neig or phylog 2007-09-06 12:21 dray * R/scatter.acm.R: Correct a bug: replace score. by score.acm 2007-09-06 12:19 dray * R/kplot.foucart.R, R/kplot.mfa.R, R/mcoa.R, R/rlq.R, R/score.coa.R, R/sepan.R, R/variance.phylog.R: Clean R files: remove local variables assigned but not used. Thanks to checkUsagePackage of codetools 2007-09-06 11:58 dray * R/PI2newick.R, R/RV.rtest.R, R/RVdist.randtest.R, R/amova.R, R/area.plot.R, R/as.taxo.R, R/between.R, R/coinertia.R, R/corkdist.R, R/disc.R, R/discrimin.R, R/discrimin.coa.R, R/dist.dudi.R, R/dist.genet.R, R/dotcircle.R, R/dudi.coa.R, R/dudi.dec.R, R/dudi.nsc.R, R/foucart.R, R/fuzzygenet.R, R/genet.R, R/gridrowcol.R, R/kplot.foucart.R, R/kplot.mfa.R, R/kplot.statis.R, R/ktab.R, R/ktab.list.dudi.R, R/ktab.match2ktabs.R, R/ktab.within.R, R/lingoes.R, R/mcoa.R, R/mld.R, R/multispati.R, R/newick2phylog.R, R/niche.R, R/optimEH.R, R/orthobasis.R, R/orthogram.R, R/pcaiv.R, R/phylog.R, R/plot.phylog.R, R/procuste.R, R/rlq.R, R/rtest.between.R, R/s.corcircle.R, R/s.hist.R, R/s.image.R, R/scatter.R, R/sco.distri.R, R/score.acm.R, R/score.coa.R, R/score.mix.R, R/sepan.R, R/statis.R, R/symbols.phylog.R, R/table.cont.R, R/table.phylog.R, R/uniquewt.df.R, R/variance.phylog.R, R/within.R, R/within.pca.R: Clean R files: remove local variables assigned but not used. Thanks to checkUsagePackage of codetools 2007-09-06 08:08 dray * man/bordeaux.Rd, man/cca.Rd, man/dudi.hillsmith.Rd, man/elec88.Rd, man/seconde.Rd: Clean Rd files: remove unmatched right brace 2007-09-04 16:12 dray * R/testdim.R, man/testdim.Rd, src/Makevars, src/testdim.c: New function testdim to estimate the number of axes in multivariate analysis 2007-09-04 15:07 dray * R/gearymoran.R, R/krandtest.R, R/niche.R, R/orthogram.R, R/randtest.amova.R, man/gearymoran.Rd, man/krandtest.Rd, man/niche.Rd, man/orthogram.Rd: reimplementation of the class krandtest and new function as.krandtest 2007-09-04 14:50 dray * man/vegtf.Rd: correction of a bug in the example section 2007-09-03 16:53 dray * R/score.coa.R, man/score.coa.Rd: new function reciprocal.coa (see http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00007.html) 2007-09-03 16:26 dray * R/sco.distri.R, man/sco.distri.Rd: sco.distri returns a data.frame with means and variances (see http://listes.univ-lyon1.fr/wws/arc/adelist/2007-06/msg00018.html) 2007-09-03 15:24 dray * R/scatter.R, R/sepan.R, R/witwitsepan.R: Add yaxt argument to scatterutil.eigen (see http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00022.html) 2007-09-03 15:04 dray * R/multispati.R: Correct legend in plot.multispati 2007-09-03 14:58 dray * data/vegtf.rda, man/vegtf.Rd: New vegetation data set to illustrate multispati analysis 2007-09-03 14:51 dray * R/niche.R, man/niche.Rd: New functions niche.param and rtest.niche 2007-08-29 16:20 dray * R/area.plot.R: the function area2poly is modified to export the bbox attribute for each polygon 2007-08-29 16:00 dray * R/s.corcircle.R: correct bug of the grid argument. see http://listes.univ-lyon1.fr/wws/arc/adelist/2007-07/msg00001.html 2007-08-29 15:47 dray * R/randtest-internal.R, R/rlq.R: correct bugs in memory allocation (C interface). These bugs have been identified using valgrind by B. Ripley (12/06/2007) 2007-06-15 07:49 dray * man/dunedata.Rd: correct the number of rows and columns in the help file 2007-04-16 12:56 dray * ChangeLog, DESCRIPTION: ---------- release of ade4 1.4-3 ---------- 2007-04-12 13:39 dray * man/suprow.Rd: correct the example section 2007-04-12 13:08 dray * ChangeLog: New ChangeLog 2007-04-12 12:58 dray * data/atlas.rda, data/avijons.rda, data/aviurba.rda, data/baran95.rda, data/bf88.rda, data/chevaine.rda, data/cnc2003.rda, data/elec88.rda, data/monde84.rda, data/rankrock.rda, data/rpjdl.rda, data/sarcelles.rda, data/steppe.rda, data/t3012.rda, data/tarentaise.rda, data/veuvage.rda, data/westafrica.rda: remove non ASCII characters in data 2007-03-26 16:47 jombart * ChangeLog, R/dudi.pco.R: reviewed by: * R/dudi.pco.R: sub and csub arguments are now actually passed to s.label 2007-03-12 14:34 jombart * ChangeLog, R/add.scatter.R, man/add.scatter.Rd, man/scatter.Rd: * R/scatter.R: removed add.scatter.eig * man/scatter.Rd: removed add.scatter.eig * R/add.scatter.R: new functions add.scatter and add.scatter.eig * man/add.scatter.Rd: doc for add.scatter and add.scatter.eig 2007-03-12 14:27 jombart * R/scatter.add.R, man/scatter.add.Rd: *** empty log message *** 2007-03-12 14:06 jombart * ChangeLog, R/add.graph.R: reviewed by: * R/add.graph.R: * R/dpcoa.R: * R/dudi.pco.R: * R/kplot.sepan.R: * R/mfa.R: * R/pta.R: * R/scatter.R: * R/scatter.add.R: * R/scatter.coa.R: * R/scatter.dudi.R: * R/statis.R: * man/scatter.Rd: * man/scatter.add.Rd: 2007-03-12 14:04 jombart * ChangeLog, R/dpcoa.R, R/dudi.pco.R, R/kplot.sepan.R, R/mfa.R, R/pta.R, R/scatter.R, R/scatter.add.R, R/scatter.coa.R, R/scatter.dudi.R, R/statis.R, man/add.graph.Rd, man/scatter.Rd, man/scatter.add.Rd: reviewed by: * R/dpcoa.R: * R/dudi.pco.R: * R/kplot.sepan.R: * R/mfa.R: * R/pta.R: * R/scatter.R: * R/scatter.add.R: * R/scatter.coa.R: * R/scatter.dudi.R: * R/statis.R: * man/add.graph.Rd: * man/scatter.Rd: * man/scatter.add.Rd: 2007-03-10 10:38 jombart * ChangeLog, R/add.graph.R, R/dpcoa.R, R/dudi.pco.R, R/kplot.sepan.R, R/mfa.R, R/pta.R, R/scatter.R, R/scatter.coa.R, R/scatter.dudi.R, R/statis.R, man/add.graph.Rd, man/dudi.pca.Rd, man/scatter.Rd, man/scatter.dudi.Rd: reviewed by: * R/add.graph.R: ajout de la fonction (contient add.graph et la nouvelle version de add.scatter.eig) * man/add.graph.Rd: ajout de la doc (add.graph et add.scatter.eig) * R/dpcoa.R: appel de add.scatter.eig: nf supprime * R/dudi.pco.R: appel de add.scatter.eig: nf supprime * R/kplot.sepan.R: appel de add.scatter.eig: nf supprime * R/mfa.R: appel de add.scatter.eig: nf supprime * R/pta.R: appel de add.scatter.eig: nf supprime * R/scatter.R: add.scatter.eig supprime (migre vers add.graph.R) * R/scatter.coa.R: appel de add.scatter.eig: nf supprime * R/scatter.dudi.R: appel de add.scatter.eig: nf supprime * R/statis.R: appel de add.scatter.eig: nf supprime * man/dudi.pca.Rd: modifications faites par Anne * man/scatter.Rd: enleve add.scatter.eig de la doc (migre vers add.graph.Rd) * man/scatter.dudi.Rd: appel de add.scatter.eig: nf supprime 2007-03-07 18:46 jombart * ChangeLog, data/rpjdl.rda: reviewed by: * data/rpjdl.rda: removed accents 2007-02-19 09:53 jthioulo * ChangeLog, R/s.arrow.R, man/s.arrow.Rd: * R/s.arrow.R: added the "boxes" argument * man/s.arrow.Rd: added the "boxes" argument 2007-02-16 09:13 dray * ChangeLog, man/orthogram.Rd: * man/orthogram.Rd: update the reference to Ollier et al.