findRecomb: Find meiotic recombination breakpoints using circular binary...

In daewoooo/StrandPhaseR: Phase template strands from Strand-seq data

Find meiotic recombination breakpoints using circular binary segmentation (CBS)

Description

This function takes as an input a VRanges-class object with extra metacolumn that contains for each variant parantal identity. P1 -> parent1 & P2 -> parent2.

Usage

findRecomb(comparison = NULL, minSeg = 100, smooth = 3, collapse.amb = TRUE)

Arguments

comparison	A VRanges-class object
minSeg	Minimal length (number of variants) being reported as haplotype block (fastseg parameter).
smooth	Number of consecutive variants being considered as a random error and so being corrected (flipped).
collapse.amb	Set to TRUE if segments with ambiguous haplotype assignments should be collapsed.

Author(s)

David Porubsky

daewoooo/StrandPhaseR documentation built on April 7, 2024, 7:13 p.m.