GFAKluge

GFAKluge is an open-source C++ library that provides a set of utilities for manipulating and summarizing Genome Fragment Assembly (GFA) files. GFA is a standard format for exchanging genome assemblies and sequence graphs. The software is designed to encourage the adoption of GFA in high-performance software.

Topic

genome assembly format;Sequence trimming;De-novo assembly;Parsing

Detail

  • Operation: Data input;Data output;Data manipulation (merging and splitting sequence graphs, filtering nodes and edges, and converting between GFA versions);Data querying

  • Software interface: Command-line user inteface,Library

  • Language: C++, TeX

  • License: The MIT License

  • Cost: Free

  • Version name: 1.1.3

  • Credit: Cambridge Trust, NIH Fellowship as part of the NIH Oxford Cambridge Scholars Program.

  • Input: -

  • Output: -

  • Contact: eric.t.dawson@gmail.com

  • Collection: -

  • Maturity: Stable

Publications

  • GFAKluge: A C++ library and command line utilities for the Graphical Fragment Assembly formats.
  • Dawson ET and Durbin R. GFAKluge: A C++ library and command line utilities for the Graphical Fragment Assembly formats. GFAKluge: A C++ library and command line utilities for the Graphical Fragment Assembly formats. 2019; 4:(unknown pages). doi: 10.21105/joss.01083
  • https://doi.org/10.21105/joss.01083
  • PMID: 31535074
  • PMC: PMC6751074

Download and documentation

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