Test for a Neutral Evolutionary Model in Cancer Sequencing Data

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Documentation for package ‘neutralitytestr’ version 0.0.3

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

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.