recipe bioconductor-diffbind

Compute differentially bound sites from multiple ChIP-seq experiments using affinity (quantitative) data. Also enables occupancy (overlap) analysis and plotting functions.

Homepage

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

License

Artistic-2.0

Recipe

/bioconductor-diffbind/meta.yaml

Links

biotools: diffbind

package bioconductor-diffbind

(downloads) docker_bioconductor-diffbind

Versions

2.10.0-1, 2.10.0-0, 2.8.0-0, 2.6.6-0, 2.6.5-0, 2.6.0-0, 2.4.8-16, 2.2.12-1, 2.2.12-0, 2.0.9-3, 2.0.9-2, 1.16.3-0

Depends bioconductor-biocparallel

>=1.16.0,<1.17.0

Depends bioconductor-deseq2

>=1.22.0,<1.23.0

Depends bioconductor-edger

>=3.24.0,<3.25.0

Depends bioconductor-genomicalignments

>=1.18.0,<1.19.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-limma

>=3.38.0,<3.39.0

Depends bioconductor-rsamtools

>=1.34.0,<1.35.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends bioconductor-summarizedexperiment

>=1.12.0,<1.13.0

Depends bioconductor-systempiper

>=1.16.0,<1.17.0

Depends bioconductor-zlibbioc

>=1.28.0,<1.29.0

Depends libgcc-ng

>=7.3.0

Depends libstdcxx-ng

>=7.3.0

Depends r-amap

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-dplyr

Depends r-ggplot2

Depends r-ggrepel

Depends r-gplots

Depends r-lattice

Depends r-locfit

Depends r-rcolorbrewer

Depends r-rcpp

Requirements

Installation

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

conda install bioconductor-diffbind

and update with:

conda update bioconductor-diffbind

or use the docker container:

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

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