recipe bioconductor-diffbind

Differential Binding Analysis of ChIP-Seq Peak Data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/DiffBind.html

License

Artistic-2.0

Recipe

/bioconductor-diffbind/meta.yaml

Links

biotools: diffbind, usegalaxy-eu: diffbind

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

package bioconductor-diffbind

Versions

2.16.0-2,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-1,  2.10.0-1,  2.10.0-0,  2.8.0-0,  2.6.6-0, 

2.16.0-2,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-1,  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-apeglm >=1.10.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-deseq2 >=1.28.0,<1.29.0

• bioconductor-edger >=3.30.0,<3.31.0

• bioconductor-genomicalignments >=1.24.0,<1.25.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-limma >=3.44.0,<3.45.0

• bioconductor-rhtslib >=1.20.0,<1.21.0

• bioconductor-rsamtools >=2.4.0,<2.5.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• bioconductor-systempiper >=1.22.0,<1.23.0

• fonts-conda-ecosystem

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.5.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.5.0

• r-amap

• r-base >=4.0,<4.1.0a0

• r-dplyr

• r-ggplot2

• r-ggrepel

• r-gplots

• r-lattice

• r-locfit

• r-rcolorbrewer

• r-rcpp

• xorg-libxt

Required By

• bioconductor-vulcan

• bioconductor-chipqc

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>)

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-diffbind/README.html)