mapGapFromOverlap

GRanges object of strand state change locations in BED format

sceFile

GRanges object of assembly gaps in BED format (can be downloaded from UCSC table browser)

gapFile

GRanges object of chromosome table (product of makeChrTable)

chrTable

prints messages to the terminal (default is TRUE)

verbose

Minimal number of strand state changes that overlap with a gap before assembly is cut at that location

overlapNum

mapGapFromOverlap -- function to co-localize strand state changes with assembly gaps

Using strand inheritance data from multiple single cells
        from the organism whose genome is to be assembled, contiBAIT
        can cluster unbridged contigs together into putative
        chromosomes, and order the contigs within those chromosomes.

mapGapFromOverlap: mapGapFromOverlap -- function to co-localize strand state changes with assembly gaps

Description

Usage

Arguments

Value