recipe bioconductor-csaw

Detection of differentially bound regions in ChIP-seq data with sliding windows, with methods for normalization and proper FDR control.

Homepage

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

License

GPL-3

Recipe

/bioconductor-csaw/meta.yaml

Links

biotools: csaw

package bioconductor-csaw

(downloads) docker_bioconductor-csaw

Versions

1.16.1-0, 1.16.0-0, 1.14.1-0, 1.12.0-0, 1.10.0-0, 1.6.1-0, 1.4.1-0, 1.4.0-0

Depends bioconductor-annotationdbi

>=1.44.0,<1.45.0

Depends bioconductor-biocgenerics

>=0.28.0,<0.29.0

Depends bioconductor-biocparallel

>=1.16.0,<1.17.0

Depends bioconductor-edger

>=3.24.0,<3.25.0

Depends bioconductor-genomeinfodb

>=1.18.0,<1.19.0

Depends bioconductor-genomicfeatures

>=1.34.0,<1.35.0

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-rhtslib

>=1.14.0,<1.15.0

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-zlibbioc

>=1.28.0,<1.29.0

Depends libgcc-ng

>=7.3.0

Depends libstdcxx-ng

>=7.3.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-rcpp

Requirements

Installation

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

conda install bioconductor-csaw

and update with:

conda update bioconductor-csaw

or use the docker container:

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

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