recipe bioconductor-rcade

R-based analysis of ChIP-seq And Differential Expression - a tool for integrating a count-based ChIP-seq analysis with differential expression summary data

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-rcade/meta.yaml

Rcade (which stands for "R-based analysis of ChIP-seq And Differential Expression") is a tool for integrating ChIP-seq data with differential expression summary data, through a Bayesian framework. A key application is in identifing the genes targeted by a transcription factor of interest - that is, we collect genes that are associated with a ChIP-seq peak, and differential expression under some perturbation related to that TF.

package bioconductor-rcade

Versions:

1.39.1-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.32.0-0,  1.29.0-0,  1.28.0-0,  1.26.0-1,  1.24.0-0

Depends:

• bioconductor-bayseq >=2.31.0,<2.32.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicalignments >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-plotrix

• r-rgl

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-rcade

and update with:

conda update bioconductor-rcade

or use the docker container:

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

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

Download stats

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