Created
April 17, 2023 07:00
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How to install ichorCNA
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mamba create --name ichorCNA && \ | |
mamba activate ichorCNA && \ | |
mamba install -y -c conda-forge -c bioconda r-essentials r-base r-devtools hmmcopy bioconductor-genomeinfodb bioconductor-genomicranges r-ichorcna && \ | |
cd $CONDA_PREFIX/lib/R/library/ichorCNA/ && \ | |
mkdir -p tmp && \ | |
git clone https://github.com/broadinstitute/ichorCNA.git tmp && \ | |
cp -r ./tmp/scripts/ . | |
# dry-run | |
Rscript $CONDA_PREFIX/lib/R/library/ichorCNA/scripts/runIchorCNA.R |
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