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SuLab / WikiGenomesBase

A configurable codebase for launching organism specific WikiGenomes spinoff applications (e.g. ChlamBase.org) This is a web application framework for creating a model organism database leveraging the taxonomic, genetic and functional data that has been loaded to Wikidata.org by the Gene Wiki Project.
https://chlambase.org/
MIT License
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Several genes show "doesn't seem to be a gene in this genome" on main page #49

Closed djow2019 closed 6 years ago

djow2019 commented 6 years ago

Example: see TC_RS00050 under Muridarum Nigg

putmantime commented 6 years ago

It seems that these are genes that have no encoded proteins in wikidata. Working on a solution now

putmantime commented 6 years ago

Looks like the protein bot is '# only using items with exactly one swiss-prot or trembl ID' and the mygene call for TC_RS00050 returns 2 ids in the trembl field. https://mygene.info/v3/gene/1245533 . Will have loop @stuppie in here and think about how to include thes.

andrewsu commented 6 years ago

... and to note, this is a link that reproduces the error: http://chlambase.org/organism/243161/gene/TC_RS00070

djow2019 commented 6 years ago

I modified the query to make the encoding property optional. image.png

Now, it properly selects non-coding genes