RPHAST is an R interface to the PHAST pacakge (Phylogenetic Analyis with Space/Time Models). It can be used for many types of analysis in comparative and evolutionary genomics, such as estimating models of evolution from sequence data, scoring alignments for conservation or acceleration, and predicting elements based on conservation or custom phylogenetic hidden Markov models. It can also perform many basic operations on multiple sequence alignments and phylogenetic trees.
| Version: | 1.4 |
| Depends: | stats |
| Suggests: | ape, seqLogo |
| Published: | 2013-03-28 |
| Author: | Melissa Hubisz, Katherine Pollard, and Adam Siepel |
| Maintainer: | Melissa Hubisz <mjhubisz at cornell.edu> |
| License: | BSD |
| Copyright: | The code in src/pcre is Copyright (c) 1997-2010 University of Cambridge. All other code is Copyright (c) 2002-2010 University of California, Cornell University. |
| URL: | http://compgen.bscb.cornell.edu/rphast |
| NeedsCompilation: | yes |
| CRAN checks: | rphast results |
| Package source: | rphast_1.4.tar.gz |
| MacOS X binary: | rphast_1.4.tgz |
| Windows binary: | rphast_1.4.zip |
| Reference manual: | rphast.pdf |
| Vignettes: |
vignette1 vignette2 vignette3 vignette1 |
| News/ChangeLog: | ChangeLog |
| Old sources: | rphast archive |
| Reverse depends: | rtfbs |