HTSSIP: High Throughput Sequencing of Stable Isotope Probing Data Analysis

Functions for analyzing high throughput sequencing stable isotope probing (HTS-SIP) data. Analyses include high resolution stable isotope probing (HR-SIP), multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable isotope probing (q-SIP).

Version: 1.3.0
Depends: R (≥ 3.1.2)
Imports: igraph (≥ 1.0.1), ape (≥ 4.1), magrittr (≥ 1.5), stringr (≥ 1.0.0), plyr (≥ 1.8.4), dplyr (≥ 0.5.0), tidyr (≥ 0.5.1), ggplot2 (≥ 2.1.0), vegan (≥ 2.4.3), DESeq2 (≥ 1.10.1), phyloseq (≥ 1.19.1), coenocliner (≥ 0.2.2), lazyeval (≥ 0.2.0)
Suggests: testthat, knitr, rmarkdown, doParallel
Published: 2017-10-25
Author: Nicholas Youngblut [aut, cre], Samuel Barnett [ctb]
Maintainer: Nicholas Youngblut <nyoungb2 at gmail.com>
License: GPL-2 | file LICENSE
NeedsCompilation: no
Citation: HTSSIP citation info
Materials: README NEWS
CRAN checks: HTSSIP results

Downloads:

Reference manual: HTSSIP.pdf
Vignettes: BD shifts
HTSSIP introduction
HTS-SIP data simulation
MW-HR-SIP
Beta diversity ordinations
heavy-SIP
q-SIP
Quantifying isotope incorporation
Package source: HTSSIP_1.3.0.tar.gz
Windows binaries: r-devel: HTSSIP_1.3.0.zip, r-release: HTSSIP_1.3.0.zip, r-oldrel: HTSSIP_1.3.0.zip
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: HTSSIP_1.2.0.tgz
Old sources: HTSSIP archive

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