recipe bioconductor-mitch

Multi-Contrast Gene Set Enrichment Analysis

Homepage

https://bioconductor.org/packages/3.12/bioc/html/mitch.html

License

CC BY-SA 4.0 + file LICENSE

Recipe

/bioconductor-mitch/meta.yaml

mitch is an R package for multi-contrast enrichment analysis. At it’s heart, it uses a rank-MANOVA based statistical approach to detect sets of genes that exhibit enrichment in the multidimensional space as compared to the background. The rank-MANOVA concept dates to work by Cox and Mann (https://doi.org/10.1186/1471-2105-13-S16-S12). mitch is useful for pathway analysis of profiling studies with one, two or more contrasts, or in studies with multiple omics profiling, for example proteomic, transcriptomic, epigenomic analysis of the same samples. mitch is perfectly suited for pathway level differential analysis of scRNA-seq data. The main strengths of mitch are that it can import datasets easily from many upstream tools and has advanced plotting features to visualise these enrichments.

package bioconductor-mitch

(downloads) docker_bioconductor-mitch

Versions

1.2.0-01.0.0-0

Depends
Required By

Installation

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

conda install bioconductor-mitch

and update with:

conda update bioconductor-mitch

or use the docker container:

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

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