[Gmod-help] GMOD component contribution

[Joachim Baran]

Dear GMOD Help Desk,

  I would like to contribute two open-source and open-science projects to the collection of GMOD components. Both projects have grown out of their bootstrapping phase and are deployed in live installations, but I have not had the time to publish about them in an academic journal yet.

  The two projects I am offering as contributions are: Yoctogi and opacmo.

  Yoctogi is a generic query interface similar to InterMine and BioMart. It combines the most valuable features of both the latter two tools, but offers additional interfaces that enable data integration with other services/tools on top. Accessible installation instructions and documentation of its supported interfaces with examples are available via Yoctogi’s web site http://www.yoctogi.org and its source code is available via https://github.com/joejimbo/Yoctogi (MIT License). Yoctogi serves the live installation of the second project that I am offering here: opacmo.

  Open Access Mortar (opacmo) is a rich text-mining resource of biomedical objects linked to publications of the open-access subset of PubMed Central. In its latest release, opacmo links diseases (DO), chemical entities (ChEBI), genes (Entrez), species (NCBI), cellular components, biological processes and molecular functions (GO) to more than a quarter million full-text articles. Its text-mining pipeline is fully open-source and available via https://github.com/joejimbo/opacmo (MIT License).

  It would be great if you could consider adding Yoctogi and opacmo as an enrichment to the existing collection of GMOD components.

Best Regards,
Joachim