rtfbs: R Transcription Factor Binding Site identification tool

RTFBS 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: 0.3.2
Depends: stats
Imports: rphast
Published: 2013-12-07
Author: Nicholas Peterson, Andre Martins, Melissa Hubisz, and Adam Siepel
Maintainer: Melissa Hubisz <mjhubisz at cornell.edu>
License: BSD_3_clause + file LICENSE
Copyright: The code in src/pcre is Copyright (c) 1997-2010 University of Cambridge. All other code is Copyright (c) 2002-2011 University of California, Cornell University.
URL: http://compgen.bscb.cornell.edu/rtfbs
NeedsCompilation: yes
Materials: ChangeLog
CRAN checks: rtfbs results

Downloads:

Reference manual: rtfbs.pdf
Vignettes: rtfbs
Package source: rtfbs_0.3.2.tar.gz
MacOS X binary: rtfbs_0.3.2.tgz
Windows binary: rtfbs_0.3.2.zip
Old sources: rtfbs archive