- recipe bioconductor-drivernet
Drivernet: uncovering somatic driver mutations modulating transcriptional networks in cancer
DriverNet is a package to predict functional important driver genes in cancer by integrating genome data (mutation and copy number variation data) and transcriptome data (gene expression data). The different kinds of data are combined by an influence graph, which is a gene-gene interaction network deduced from pathway data. A greedy algorithm is used to find the possible driver genes, which may mutated in a larger number of patients and these mutations will push the gene expression values of the connected genes to some extreme values.
- package bioconductor-drivernet¶
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install bioconductor-drivernet and update with:: mamba update bioconductor-drivernet
To create a new environment, run:
mamba create --name myenvname bioconductor-drivernet
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).
Alternatively, use the docker container:
docker pull quay.io/biocontainers/bioconductor-drivernet:<tag> (see `bioconductor-drivernet/tags`_ for valid values for ``<tag>``)