recipe bioconductor-rmmquant

RNA-Seq is currently used routinely, and it provides accurate information on gene transcription. However, the method cannot accurately estimate duplicated genes expression. Several strategies have been previously used, but all of them provide biased results. With Rmmquant, if a read maps at different positions, the tool detects that the corresponding genes are duplicated; it merges the genes and creates a merged gene. The counts of ambiguous reads is then based on the input genes and the merged genes. Rmmquant is a drop-in replacement of the widely used tools findOverlaps and featureCounts that handles multi-mapping reads in an unabiased way.

Homepage

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

License

GPL-3

Recipe

/bioconductor-rmmquant/meta.yaml

package bioconductor-rmmquant

(downloads) docker_bioconductor-rmmquant

Versions

1.0.0-0

Depends
Required By

Installation

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

conda install bioconductor-rmmquant

and update with:

conda update bioconductor-rmmquant

or use the docker container:

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

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