positivity_test: Computes a p-value of ctDNA positivity with a Monte-Carlo...
In alkodsi/ctDNAtools: Analyze Circulating Tumor DNA Sequencing Data

Description Usage Arguments Value See Also

A function to determine ctDNA positivity with N repeated Monte Carlo simulations. Return a p-value based on Monte Carlo simulation test. Calls simulator function n_simulations times.

1	positivity_test(depths, alt_reads, rate, seed = 123, n_simulations = 10000)

`depths`	a vector with the depths of the variants
`alt_reads`	the observed variant allele reads
`rate`	A named list containing mismatch rates as produced by get_background_rate function
`seed`	the random seed
`n_simulations`	the number of simulations to run.