/PPYR_OGS

Official Geneset (OGS) for Photinus pyralis, at least until I figure out a long term alternative

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Photinus pyralis Official Geneset

This is the Official Geneset (OGS) for Photinus pyralis (Big Dipper Firefly)

As reported in this preprint: https://www.biorxiv.org/content/early/2018/02/25/237586

Genome version: Ppyr1.3
Geneset version: PPYR_OGS1.0

This GIT repository is meant to keep track of any changes to the OGS, and hopefully have a useful audit log which describes what changes occured.

Also see: fireflybase.org

Where can I download an official version of the data?

See Releases

Dependencies

(Executable from your local command line)

Reporting gene model problems

Report issues here

Making direct gene model or annotation changes

  1. Fork this repository
  2. Download and edit the PPYR_OGS*.gff3 file
  3. Sort the GFF3 file and regenerate dependent files (CDS, mRNA, peptide) files using the utility_scripts/sort-and-regenerate-OGS-GFF.sh script.
  4. Commit your changes back to your repository, with an informative message for the changes that were made
  5. Submit a pull request to this repository
  6. If all looks good I'll merge the pull request

Future

Get a proper relational database ala Chado, and/or a collaborative GUI editing interface, ala Apollo.

License

Data files (e.g. geneset .fa.gz files, gff3 files) are licensed under the Creative Commons CC-BY-SA 4.0 International license. Software (e.g. BASH scripts) is licensed under the MIT license

Drawing