Copyright: All code is Copyright (c) 2002-2018 University of
        California, Cornell University, Cold Spring Harbor Laboratory.
Package: rphast
Maintainer: Ritika Ramani <rramani@cshl.edu>
License: BSD_3_clause + file LICENSE
Title: Interface to 'PHAST' Software for Comparative Genomics
Author: Melissa Hubisz, Katherine Pollard, and Adam Siepel
Description: Provides an R interface to the 'PHAST'(<http://compgen.cshl.edu/phast/>) software
    (Phylogenetic Analysis 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: 1.6.9
URL: http://compgen.cshl.edu/rphast
Date: 2018-01-30
Imports: methods
Depends: stats
Suggests: ape, seqLogo
Collate: 'bgc.R' 'checkArgs.R' 'feat.R' 'hmm.R' 'listOfLists.R' 'msa.R'
        'optim.R' 'phastCons.R' 'phyloFit.R' 'phyloP.R' 'plot.R'
        'rphast.R' 'treeModel.R' 'trees.R' 'zzz.R'
RoxygenNote: 5.0.1
Packaged: 2018-01-30 15:54:53 UTC; rramani
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2018-02-11 15:39:12 UTC
Built: R 4.1.0; x86_64-apple-darwin13.4.0; 2021-06-02 15:36:17 UTC; unix
