How IGB recognizes species and genome versions

IGB is distributed with a two tab-delimited file files called "species.txt" and "synonyms.txt" that lists binomial names for species with sequence genomes along with their common names.

IGB uses these data to populate the Species menu in the Current Genome tab.

When allow it to match genome version names across QuickLoad sites, Galaxy, and the UCSC Genome Bioinformatics system. Also, whenever IGB accesses a QuickLoad site, it will also attempt to retrieve a speciestries to download species.txt and synonyms.txt file from the QuickLoad top-level, root directory of the site. If available, it will use those data the files are not present, no harm is done, but if they are, IGB can use them to add new species and genome versions to the Species menu.

Species.txt

For an example, see: http://www.igbquickload.org/quickload/species.txt.

The species.txt file that is distributed with IGB is version-controlled and resides in the igb/resource directory in the project repository. and Genome Version menus in the Current Genome tab.  IGB does this so that if you have set up your own custom IGB QuickLoad site with new genome, IGB will display your data in the same way as other genomes.

See:

• Use species.txt to link species names to IGB genome names
• Use synonyms.txt to link genome versions names to each other