TFBSTools

Software package for transcription factor binding site (TFBS) analysis

Bioconductor version: Release (2.14)

TFBSTools is a package for the analysis and manipulation of transcription factor binding sites and transcription factor profile matrices.

Author: Ge Tan <ge.tan09 at imperial.ac.uk>

Maintainer: Ge Tan <ge.tan09 at imperial.ac.uk>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("TFBSTools")

To cite this package in a publication, start R and enter:

    citation("TFBSTools")

Documentation

PDF R Script TFBSTools
PDF   Reference Manual

Details

biocViews GeneRegulation, MotifAnnotation, MotifDiscovery, Software
Version 1.2.0
In Bioconductor since BioC 2.13 (R-3.0)
License GPL-2
Depends R (>= 3.0.1)
Imports Biostrings(>= 2.29.19), RSQLite (>= 0.11.4), seqLogo, GenomicRanges(>= 1.13.50), caTools (>= 1.14), XVector(>= 0.2.0), rtracklayer(>= 1.22.0), BSgenome(>= 1.30.0), IRanges(>= 1.19.38), methods, gtools (>= 3.0.0), CNEr(>= 0.99.8), BiocParallel(>= 0.5.6), DirichletMultinomial(>= 1.5.1)
Suggests JASPAR2014(>= 0.99.3), RUnit, BiocGenerics
System Requirements meme
URL http://jaspar.genereg.net/
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source TFBSTools_1.2.0.tar.gz
Windows Binary TFBSTools_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) TFBSTools_1.2.0.tgz
Mac OS X 10.9 (Mavericks)
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