check_distal_only_contig_support: check_distal_only_contig_support

In mskilab/loosends: Classifying loose ends in gGraphs

check_distal_only_contig_support

Description

Gets supporting reads for contigs with distal-only alignments This is likely to cause false positives for split contigs so use only with distal-only contigs

Usage

check_distal_only_contig_support(
  calns,
  reads.dt,
  ref.pad = 5000,
  seed.pad = 0,
  verbose = FALSE
)

Arguments

calns	(data.table) represents contig alignment for a SINGLE contig
reads.dt	(data.table) reads corresponding to the loose end associated with this contig
ref.pad	(numeric) pad (bp) around seed region to get reference alignment, default 5 kbp
seed.pad	(numeric) number of base pairs around peak to search for supporting reads, default 0
verbose	(logical) default FALSE

mskilab/loosends documentation built on Aug. 24, 2023, 8:08 a.m.