get_all_DMRs: Nested DMR calling function within Get_Novel_DMRs()

In PCBS: Principal Component BiSulfite

Nested DMR calling function within Get_Novel_DMRs()

Description

Expands DMRs from collapsed seeds iteratively.

Usage

get_all_DMRs(chromDictObj, seeds, res=40, max.dmr.size=3000, min.dmr.cpgs=10,
min.absZscore, null)

Arguments

chromDictObj	chromDict() output.
seeds	compressed seeds
res	Get_Novel_DMRs arg DMR_resolution
max.dmr.size	Get_Novel_DMRs arg QueryLimit
min.dmr.cpgs	Get_Novel_DMRs arg minCpGs
min.absZscore	Get_Novel_DMRs arg minZ
null	null distribution

Value

Returns a list with two indicies, representing intermediate DMR calls within the Get_Novel_DMRs() function and a list of background regions..

PCBS documentation built on Sept. 11, 2024, 6:11 p.m.