recipe bioconductor-dchiprep

The DChIPRep package implements a methodology to assess differences between chromatin modification profiles in replicated ChIP-Seq studies as described in Chabbert et. al - http://www.dx.doi.org/10.15252/msb.20145776. A detailed description of the method is given in the software paper at https://doi.org/10.7717/peerj.1981

Homepage

https://bioconductor.org/packages/3.9/bioc/html/DChIPRep.html

License

MIT + file LICENCE

Recipe

/bioconductor-dchiprep/meta.yaml

Links

biotools: dchiprep

package bioconductor-dchiprep

(downloads) docker_bioconductor-dchiprep

Versions

1.12.0-0, 1.10.0-0, 1.8.0-0

Depends bioconductor-chippeakanno

>=3.16.0,<3.17.0

Depends bioconductor-deseq2

>=1.22.0,<1.23.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends bioconductor-soggi

>=1.14.0,<1.15.0

Depends bioconductor-summarizedexperiment

>=1.12.0,<1.13.0

Depends r-assertthat

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-fdrtool

Depends r-ggplot2

Depends r-plyr

Depends r-purrr

Depends r-reshape2

Depends r-smoothmest

Depends r-tidyr

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-dchiprep

and update with:

conda update bioconductor-dchiprep

or use the docker container:

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

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