GfaPy

GfaPy is written in Python and released under the MIT License. It is available on pip and GitHub, and can be installed using pip: `pip install gfapy` The GfaPy API includes functions for creating and parsing GFA files, editing existing GFA records, and validating the GFA graph. The API also supports custom record types, allowing users to create their own GFA record types. GfaPy also includes a command-line tool for creating, parsing, and editing GFA files. GfaPy is a useful tool for bioinformaticians and developers working with sequence graphs, and provides a simple, straightforward interface for creating and manipulating GFA files.

Topic

Sequencing;Data visualisation;Sequence analysis;Genetic variation;Sequence assembly

Detail

  • Operation: Sequence visualisation

  • Software interface: Command-line user interface;Library

  • Language: Python

  • License: OpenBSD

  • Cost: Free

  • Version name: 1.2.3

  • Credit: -

  • Input: -

  • Output: -

  • Contact: Giorgio Gonnella gonnella@zbh.uni-hamburg.de

  • Collection: -

  • Maturity: Stable

Publications

  • GfaPy: a flexible and extensible software library for handling sequence graphs in Python
  • Gonnella G, Kurtz S. GfaPy: a flexible and extensible software library for handling sequence graphs in Python. Bioinformatics. 2017 Oct 1;33(19):3094-3095. doi: 10.1093/bioinformatics/btx398. PMID: 28645150.
  • https://doi.org/10.1093/bioinformatics/btx398
  • PMID: 28645150
  • PMC: -

Download and documentation


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