recipe bioconductor-pbcmc

The pbcmc package characterizes uncertainty assessment on gene expression classifiers, a. k. a. molecular signatures, based on a permutation test. In order to achieve this goal, synthetic simulated subjects are obtained by permutations of gene labels. Then, each synthetic subject is tested against the corresponding subtype classifier to build the null distribution. Thus, classification confidence measurement can be provided for each subject, to assist physician therapy choice. At present, it is only available for PAM50 implementation in genefu package but it can easily be extend to other molecular signatures.

Homepage

http://bioconductor.org/packages/3.7/bioc/html/pbcmc.html

License

GPL (>=2)

Recipe

/bioconductor-pbcmc/meta.yaml

Links

biotools: pbcmc, doi: 10.1038/nmeth.3252

package bioconductor-pbcmc

(downloads) docker_bioconductor-pbcmc

Versions

1.8.0-0, 1.6.0-0

Depends
Required By

Installation

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

conda install bioconductor-pbcmc

and update with:

conda update bioconductor-pbcmc

or use the docker container:

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

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