recipe bioconductor-cnvpanelizer

A method that allows for the use of a collection of non-matched normal tissue samples. Our approach uses a non-parametric bootstrap subsampling of the available reference samples to estimate the distribution of read counts from targeted sequencing. As inspired by random forest, this is combined with a procedure that subsamples the amplicons associated with each of the targeted genes. The obtained information allows us to reliably classify the copy number aberrations on the gene level.

Homepage

https://bioconductor.org/packages/3.8/bioc/html/CNVPanelizer.html

License

GPL-3

Recipe

/bioconductor-cnvpanelizer/meta.yaml

Links

biotools: cnvpanelizer, doi: 10.1038/nmeth.3252

package bioconductor-cnvpanelizer

(downloads) docker_bioconductor-cnvpanelizer

Versions

1.14.0-0, 1.12.0-0, 1.8.0-0

Depends
Required By

Installation

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

conda install bioconductor-cnvpanelizer

and update with:

conda update bioconductor-cnvpanelizer

or use the docker container:

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

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