recipe bioconductor-dmrcaller

Differentially Methylated Regions caller

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-dmrcaller/meta.yaml

Uses Bisulfite sequencing data in two conditions and identifies differentially methylated regions between the conditions in CG and non-CG context. The input is the CX report files produced by Bismark and the output is a list of DMRs stored as GRanges objects.

package bioconductor-dmrcaller

Versions:

1.30.0-0,  1.26.0-2,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0, 

1.30.0-0,  1.26.0-2,  1.26.0-1,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.14.0-0

Depends:

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• 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-betareg

• r-rcpp

• r-rcpproll

Required By:

Installation

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

conda install bioconductor-dmrcaller

and update with:

conda update bioconductor-dmrcaller

or use the docker container:

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

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

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