recipe bioconductor-diffbind

Differential Binding Analysis of ChIP-Seq Peak Data

Homepage:

https://bioconductor.org/packages/3.14/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:

3.4.11-0,  3.4.0-0,  3.2.7-0,  3.2.1-0,  3.0.15-0,  3.0.3-0,  2.16.0-2,  2.16.0-1,  2.16.0-0, 

3.4.11-0,  3.4.0-0,  3.2.7-0,  3.2.1-0,  3.0.15-0,  3.0.3-0,  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 >=1.16.0,<1.17.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-deseq2 >=1.34.0,<1.35.0

• bioconductor-genomicalignments >=1.30.0,<1.31.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-greylistchip >=1.26.0,<1.27.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-limma >=3.50.0,<3.51.0

• bioconductor-rhtslib >=1.26.0,<1.27.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• bioconductor-systempiper >=2.0.0,<2.1.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-amap

• r-ashr

• r-base >=4.1,<4.2.0a0

• r-dplyr

• r-ggplot2

• r-ggrepel

• r-gplots

• r-lattice

• r-locfit

• r-rcolorbrewer

• r-rcpp

Required By:

• bioconductor-vulcan

• bioconductor-chipqc

Installation

With an activated Bioconda channel (see 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>)

Download stats

Link to this page

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