recipe bioconductor-mcsea

Identification of diferentially methylated regions (DMRs) in predefined regions (promoters, CpG islands…) from the human genome using Illumina’s 450K or EPIC microarray data. Provides methods to rank CpG probes based on linear models and includes plotting functions.

Homepage

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

License

GPL-2

Recipe

/bioconductor-mcsea/meta.yaml

package bioconductor-mcsea

(downloads) docker_bioconductor-mcsea

Versions

1.2.0-0

Depends bioconductor-fgsea

>=1.8.0,<1.9.0

Depends bioconductor-genomicfeatures

>=1.34.0,<1.35.0

Depends bioconductor-genomicranges

>=1.34.0,<1.35.0

Depends bioconductor-gviz

>=1.26.0,<1.27.0

Depends bioconductor-homo.sapiens

>=1.3.0,<1.4.0

Depends bioconductor-iranges

>=2.16.0,<2.17.0

Depends bioconductor-limma

>=3.38.0,<3.39.0

Depends bioconductor-mcseadata

>=1.2.0,<1.3.0

Depends bioconductor-s4vectors

>=0.20.0,<0.21.0

Depends bioconductor-summarizedexperiment

>=1.12.0,<1.13.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-ggplot2

Requirements

Installation

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

conda install bioconductor-mcsea

and update with:

conda update bioconductor-mcsea

or use the docker container:

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

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