mergeConsBin.cbs: Segmentation using CBS (NOT READY)

In jmonlong/PopSV: Population-based detection of structural variants from Read-Depth signal

Description

Circular Binary Segmentation of the Z-scores. (NOT TESTED WELL YET)

Usage

mergeConsBin.cbs(df, pv.th = 0.01, stitch.dist = 10000,
  max.gap.size = 1e+05)

Arguments

df	a data.frame with at least 'chr', 'start' and 'end' columns.
pv.th	the P-value threshold used for the segmentation and the segment filtering. Default is 0.01.
stitch.dist	the stitching distance, i.e. the maximum distance at which two bins will be merged.
max.gap.size	the maximum gap between bins allowed. Default is 100 kb. Calls will not span gap larger than this (e.g. centromere).

Value

a data.frame, similar to the input but with merged rows.

Author(s)

Jean Monlong

jmonlong/PopSV documentation built on Sept. 15, 2019, 9:29 p.m.