MatchAlign: Parsing GFA and GAF Alignment Files

Provides tools for extracting segment paths from Graphical Fragment Assembly ('GFA') and Graph Alignment Format ('GAF') files. parse_paths_gfa() reads P (path) and W (walk) records and returns a named list of segment identifiers for each accession. parse_paths_gaf() parses the path string from each alignment and returns a named list of segments traversed by each query. parse_segment_lengths_gfa() reads S records and returns a named list of segment lengths keyed by segment identifier. These tools are intended to simplify downstream interpretation and analysis of pangenome graphs.

Version:	0.1.2
Suggests:	testthat (≥ 3.0.0)
Published:	2026-09-12
DOI:	10.32614/CRAN.package.MatchAlign
Author:	Camille R. Mazurek [aut, cre], Michael J. Tisza [ctb]
Maintainer:	Camille R. Mazurek <camillemazurek23 at gmail.com>
BugReports:	https://github.com/cromazurek/MatchAlign/issues
License:	MIT + file LICENSE
URL:	https://github.com/cromazurek/MatchAlign
NeedsCompilation:	no
Materials:	README, NEWS
CRAN checks:	MatchAlign results

Documentation:

Reference manual:

MatchAlign.html , MatchAlign.pdf

Downloads:

Package source:	MatchAlign_0.1.2.tar.gz
Windows binaries:	r-devel: MatchAlign_0.1.2.zip, r-release: MatchAlign_0.1.2.zip, r-oldrel: MatchAlign_0.1.2.zip
macOS binaries:	r-release (arm64): MatchAlign_0.1.2.tgz, r-oldrel (arm64): MatchAlign_0.1.2.tgz, r-release (x86_64): MatchAlign_0.1.2.tgz, r-oldrel (x86_64): MatchAlign_0.1.2.tgz

Linking:

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