mergeConsBin.cbs: Segmentation using CBS (NOT READY)

Description Usage Arguments Value Author(s)

View source: R/mergeConsBin.cbs.R

Description

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

Usage

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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 April 19, 2018, 2:10 p.m.