recipe bioconductor-chic

Quality Control Pipeline for ChIP-Seq Data

Homepage:

https://bioconductor.org/packages/3.14/bioc/html/ChIC.html

License:

GPL-2

Recipe:

/bioconductor-chic/meta.yaml

Quality control (QC) pipeline for ChIP-seq data using a comprehensive set of QC metrics, including previously proposed metrics as well as novel ones, based on local characteristics of the enrichment profile. The package provides functions to calculate a set of QC metrics, a compendium with reference values and machine learning models to score sample quality.

package bioconductor-chic

Versions:

1.14.0-0,  1.12.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.4.0-1,  1.2.0-1,  1.2.0-0

Depends:

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-chic.data >=1.14.0,<1.15.0

• bioconductor-genomeintervals >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-iranges >=2.28.0,<2.29.0

• bioconductor-rsamtools >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• r-base >=4.1,<4.2.0a0

• r-caret

• r-catools

• r-progress

• r-randomforest

• r-spp

Required By:

Installation

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

conda install bioconductor-chic

and update with:

conda update bioconductor-chic

or use the docker container:

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

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

Download stats

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