merge_segment: Merge adjacent 4-CpG segments into pCSM regions

In Gavin-Yinld/csmFinder: Find putative cell-subset specific methylation (pCSM) loci in single-cell methylomes or bulk methylomes

Description

This function is used to convert the 4-CpG segments into pCSM loci

Usage

merge_segment(pCSM_segment,data_type="regular",extension=0)

Arguments

pCSM_segment	the segments determined as the pCSM segments
data_type	"regular" and "single-cell" represents regular datasets and single-cell datasets, respectively
extension	the length of bases need to be extended, for example, extension=100 means that extend the pCSM segments 100bp in both of their upstream and downstream.

Examples

#for bulk methylome
#pcsm_loci <- merge_segment(pcsm_segment,extension=0)
#for single-cell methylome
#scPcsm_loci <- merge_segment(scPcsm_segment,data_type="single-cell",extension=0)

Gavin-Yinld/csmFinder documentation built on Sept. 16, 2019, 3:31 p.m.