recipe bioconductor-cexor

An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/CexoR.html

License:

Artistic-2.0 | GPL-2 + file LICENSE

Recipe:

/bioconductor-cexor/meta.yaml

Links:

biotools: cexor, doi: 10.14806/ej.21.0.837

Strand specific peak-pair calling in ChIP-exo replicates. The cumulative Skellam distribution function is used to detect significant normalised count differences of opposed sign at each DNA strand (peak-pairs). Then, irreproducible discovery rate for overlapping peak-pairs across biological replicates is computed.

package bioconductor-cexor

Versions:

1.36.0-0,  1.32.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.20.0-0,  1.18.0-0, 

1.36.0-0,  1.32.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.8.0-0

Depends:

• bioconductor-genomation >=1.30.0,<1.31.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-idr

• r-rcolorbrewer

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-cexor

and update with:

conda update bioconductor-cexor

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-cexor:<tag>

(see bioconductor-cexor/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-cexor/README.html)