recipe bioconductor-baalchip

BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-baalchip/meta.yaml

Links:

biotools: baalchip, doi: 10.1186/s13059-017-1165-7

The package offers functions to process multiple ChIP-seq BAM files and detect allele-specific events. Computes allele counts at individual variants (SNPs/SNVs), implements extensive QC steps to remove problematic variants, and utilizes a bayesian framework to identify statistically significant allele- specific events. BaalChIP is able to account for copy number differences between the two alleles, a known phenotypical feature of cancer samples.

package bioconductor-baalchip

(downloads) docker_bioconductor-baalchip

Versions:
1.24.0-01.20.0-01.18.0-01.16.0-11.16.0-01.14.0-01.12.0-01.10.0-11.8.0-0

1.24.0-01.20.0-01.18.0-01.16.0-11.16.0-01.14.0-01.12.0-01.10.0-11.8.0-01.6.0-01.4.0-0

Depends:
Required By:

Installation

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

conda install bioconductor-baalchip

and update with:

conda update bioconductor-baalchip

or use the docker container:

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

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

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