recipe bioconductor-csaw

ChIP-Seq Analysis with Windows

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/csaw.html

License:

GPL-3

Recipe:

/bioconductor-csaw/meta.yaml

Links:

biotools: csaw

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

package bioconductor-csaw

Versions:

1.32.0-1,  1.32.0-0,  1.28.0-2,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.3-0,  1.24.0-0,  1.22.0-0, 

1.32.0-1,  1.32.0-0,  1.28.0-2,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.3-0,  1.24.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  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-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-metapod >=1.6.0,<1.7.0

• bioconductor-rhtslib >=2.0.0,<2.1.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-zlibbioc >=1.44.0,<1.45.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-matrix

• r-rcpp

Required By:

• bioconductor-diffhic

• bioconductor-epigrahmm

• bioconductor-icetea

• bioconductor-extrachips

• bioconductor-vulcan

• bioconductor-nadfinder

Installation

With an activated Bioconda channel (see 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>)

Download stats

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