add_contig_ctypes: add_contig_ctypes

In mskilab/loosends: Classifying loose ends in gGraphs

add_contig_ctypes

Description

Given data.table of contig alignments, add c_type and c_spec labels based on reference sequence

Usage

add_contig_ctypes(
  calns,
  refseq.fn = system.file("extdata", "reference.sequences.rds", package = "loosends"),
  remove.decoy = FALSE,
  verbose = FALSE
)

Arguments

calns	(data.table of contig alignments)
refseq.fn	(path to key of reference sequences)
remove.decoy	(logical) remove alignments to decoy sequences? default FALSE
verbose	(logical) default FALSE

Value

data.table with new columns c_type and c_spec

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