| lsq_plot | Plot cumulative distribution 'lsq_plot' Plots the cumulative distribution of the data as well as the best fit linear model line. |
| neutralitytest | Testing for neutrality on cancer sequencing data |
| neutralitytestr | 'neutralitytestr' package |
| normalized_plot | Plot normalized cumulative distribution 'normalized_plot' Plots the (normalized) cumulative distribution of the data as well as the theoretical expectation from a neutral evolutionary model. |
| plot_all | Plot all plots in the package and make composite figure. 'plot_all' Plots histogram, linear model best fit plot and normalized plot and plot and makes composite figure. |
| VAFneutral | Synthetic sequencing data generated from a evolutionary based cancer simulation. |
| VAFselection | Synthetic sequencing data generated from a evolutionary based cancer simulation. |
| vaf_histogram | Plot VAF histogram 'vaf_histogram' Plots a histogram of the variant allele frequencies. |