rtfbs: Transcription Factor Binding Site Identification Tool

Identifies and scores possible Transcription Factor Binding Sites and allows for FDR analysis and pruning. It supports splitting of sequences based on size or a specified GFF, grouping by G+C content, and specification of Markov model order. The heavy lifting is done in C while all results are made available via R.

Version: 0.3.5
Depends: stats
Imports: rphast, methods
Published: 2016-08-16
Author: Nicholas Peterson, Andre Martins, Melissa Hubisz, and Adam Siepel
Maintainer: Melissa Hubisz <mjhubisz at cornell.edu>
BugReports: NA
License: BSD_3_clause + file LICENSE
Copyright: Copyright (c) 2002-2016 University of California, Cornell University, Cold Spring Harbor Laboratory.
URL: http://compgen.cshl.edu/rtfbs
NeedsCompilation: yes
Materials: ChangeLog
CRAN checks: rtfbs results

Downloads:

Reference manual: rtfbs.pdf
Vignettes: rtfbs
Package source: rtfbs_0.3.5.tar.gz
Windows binaries: r-devel: rtfbs_0.3.5.zip, r-release: rtfbs_0.3.5.zip, r-oldrel: rtfbs_0.3.5.zip
OS X Mavericks binaries: r-release: rtfbs_0.3.5.tgz, r-oldrel: rtfbs_0.3.5.tgz
Old sources: rtfbs archive