Test for a Neutral Evolutionary Model in Cancer Sequencing Data
Plot cumulative distribution lsq_plot Plots the cumulative distribut...
Testing for neutrality on cancer sequencing data
neutralitytestr package
Plot normalized cumulative distribution normalized_plot Plots the (n...
Plot all plots in the package and make composite figure. plot_all Pl...
Plot VAF histogram vaf_histogram Plots a histogram of the variant al...
Package takes frequencies of mutations as reported by high throughput sequencing data from cancer and fits a theoretical neutral model of tumour evolution. Package outputs summary statistics and contains code for plotting the data and model fits. See Williams et al 2016 <doi:10.1038/ng.3489> and Williams et al 2017 <doi:10.1101/096305> for further details of the method.
Useful links