genotype.binom: Assign states to any given region using binomial test.

In daewoooo/breakpointR: Find breakpoints in Strand-seq data

Assign states to any given region using binomial test.

Description

Assign states to any given region using binomial test.

Usage

genotype.binom(wReads, cReads, background = 0.05, minReads = 10, log = FALSE)

Arguments

wReads	Number of Watson reads.
cReads	Number of Crick reads.
background	The percent (e.g. 0.05 = 5%) of background reads allowed for WW or CC genotype calls.
minReads	The minimal number of reads between two breaks required for genotyping.
log	Set to TRUE if you want to calculate probability in log space.

Value

A list with the $bestFit and $pval.

Author(s)

David Porubsky

Examples

## Get Crick and Watson read counts
## Crick read count
cReads <- 30
## Watson read count
wReads <- 5  
genotype.binom(cReads = cReads, wReads = wReads, background = 0.05, minReads = 10, log = TRUE)

daewoooo/breakpointR documentation built on May 9, 2024, 5:03 p.m.