CloneSig for identification of genes with convergent mutations across multiple cancer clones.
Implemented in Convergent evolution within and across patients reveals mechanisms of cancer drug resistance.
python Run_CloneSig.py input.maf genes_list.txt [--n_perm N_PERMUTATIONS] [--step {permutations,genes,all}]- Clone this repository:
git clone https://github.com/getzlab/CloneSig.git
cd CloneSig- Install CloneSig and its dependencies:
pip install -e .- Install CurveBall:
# Option 1: Install as an extra
pip install -e .[curveball]
# Option 2: Manual installation
git clone https://github.com/getzlab/CurveBall.git
cd CurveBall
pip install -e .