- recipe bioconductor-tfbstools
Software Package for Transcription Factor Binding Site (TFBS) Analysis
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/TFBSTools.html
- License
GPL-2
- Recipe
- Links
biotools: tfbstools
TFBSTools is a package for the analysis and manipulation of transcription factor binding sites. It includes matrices conversion between Position Frequency Matirx (PFM), Position Weight Matirx (PWM) and Information Content Matrix (ICM). It can also scan putative TFBS from sequence/alignment, query JASPAR database and provides a wrapper of de novo motif discovery software.
- package bioconductor-tfbstools¶
-
- Versions
1.32.0-1
,1.32.0-0
,1.30.0-0
,1.28.0-1
,1.28.0-0
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.20.0-1
,1.32.0-1
,1.32.0-0
,1.30.0-0
,1.28.0-1
,1.28.0-0
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.20.0-1
,1.20.0-0
,1.18.0-0
,1.16.0-0
,1.15.7-0
,1.14.2-0
,1.12.2-0
- Depends
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biocparallel
>=1.28.0,<1.29.0
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-bsgenome
>=1.62.0,<1.63.0
bioconductor-cner
>=1.30.0,<1.31.0
bioconductor-dirichletmultinomial
>=1.36.0,<1.37.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-seqlogo
>=1.60.0,<1.61.0
bioconductor-xvector
>=0.34.0,<0.35.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
r-base
>=4.1,<4.2.0a0
r-catools
>=1.17.1
r-dbi
>=0.6
r-gtools
>=3.5.0
r-rsqlite
>=1.0.0
r-tfmpvalue
>=0.0.5
r-xml
>=3.98-1.3
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-tfbstools
and update with:
conda update bioconductor-tfbstools
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-tfbstools:<tag>
(see bioconductor-tfbstools/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-tfbstools/README.html)