recipe bioconductor-medips

MEDIPS was developed for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-seq). However, MEDIPS provides functionalities for the analysis of any kind of quantitative sequencing data (e.g. ChIP-seq, MBD-seq, CMS-seq and others) including calculation of differential coverage between groups of samples and saturation and correlation analysis.

Homepage

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

License

GPL (>=2)

Recipe

/bioconductor-medips/meta.yaml

Links

biotools: medips

package bioconductor-medips

(downloads) docker_bioconductor-medips

Versions

1.34.0-0, 1.32.0-0, 1.30.0-0, 1.28.0-0, 1.24.0-0

Depends bioconductor-biomart

>=2.38.0,<2.39.0

Depends bioconductor-biostrings

>=2.50.0,<2.51.0

Depends bioconductor-bsgenome

>=1.50.0,<1.51.0

Depends bioconductor-dnacopy

>=1.56.0,<1.57.0

Depends bioconductor-edger

>=3.24.0,<3.25.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-preprocesscore

>=1.44.0,<1.45.0

Depends bioconductor-rsamtools

>=1.34.0,<1.35.0

Depends bioconductor-rtracklayer

>=1.42.0,<1.43.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-gtools

Requirements

Installation

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

conda install bioconductor-medips

and update with:

conda update bioconductor-medips

or use the docker container:

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

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