A repository with scripts and functions for visualizations related to mutation signatures.
The methods and experiments are written in Python 3. We recommend using Conda to manage dependencies, which you can do directly using the provided environment.yml file:
conda env create -f environment.yml
source activate mutation-signatures-viz-env
We use snakemake to manage workflows.
The main expected usage of this repo is importing the various plotting functions into your own Python programs.
The list of available plotting functions is below, with further document in the Wiki (TODO).
sbs_signature_plot(): plot one or more distributions over SBS categories separated by substitution.
We do provide one example in example/ to generate a single base substitution plot from the COSMIC mutation signatures for glioblastoma: COSMIC SBS Signatures 1, 5, and 11. To download the data and run the example:
cd example
snakemake all
When the build is not broken, Travis CI automatically runs the example and updates the image below:
