patchwork.segment: patchwork segmentation function

Description Usage Arguments Details Author(s) See Also

View source: R/patchwork.segment.r

Description

Internal function of patchwork.plot().

Usage

1
patchwork.segment(kbsegs,chroms,Alpha,SD)

Arguments

kbsegs

kbsegs generated from patchwork.smoothing().

chroms

chroms is an object generated from pile.alleles.RData's alf\$achr attribute.

Alpha

Default is inherited from patchwork.plot() and is 0.0001. From DNAcopy (?segment): alpha: significance levels for the test to accept change-points.

SD

Default is inherited from patchwork.plot() and is 1. From DNAcopy (?segment): undo.SD: the number of SDs between means to keep a split if undo.splits="sdundo".

Details

Performs a segmentation using various functions of DNAcopy package and returns the segments in a new object called "segs", saved in Segments.Rdata.

See ?DNAcopy

Author(s)

Markus Mayrhofer, [email protected] Sebastian DiLorenzo, [email protected]

See Also

patchwork.plot


patchwork documentation built on May 31, 2017, 2:54 a.m.