load_alignment: Load alignments between optical maps

In yanlinlin82/Rbionano: R package for BioNano data manipulation and visualization

Description

BioNano optical maps can be aligned to each other. Normally, the alignment results are saved into three files, named as "xxx.xmap", "xxx_r.xmap" and "xxx_q.xmap".

Usage

load_alignment(file, ref_file, qry_file, sort = FALSE,
  expandHitEnum = FALSE)

Arguments

file	xmap ('xxx.xmap') file to load
ref_file	reference cmap ('xxx_r.cmap') file to load
qry_file	query cmap ('xxx_q.cmap') file to load
sort	logical. If "TRUE", the results will be sorted by genomic coordinates, otherwise to keep order as in file
expandHitEnum	logical. If "TRUE", the 'hitEnum' field will be parsed

Value

'load_alignment()' returns a list, which contains three data frames, named as 'xmap', 'ref' and 'qry'.

See Also

read_xmap read_cmap

yanlinlin82/Rbionano documentation built on Dec. 26, 2019, 7:37 a.m.