gff/gtf to sqlite wrapper

bgruening / galaxytools

:microscope::books: Galaxy Tool wrappers

MIT License

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gff/gtf to sqlite wrapper #96

Open bgruening opened 9 years ago

bgruening commented 9 years ago

The idea is to collect as many annotations as possible and put then into a data store, like sqlite. Answering questions and querying should be separate tools on-top of this storage. Pretty much like gemini.

This library seems to be well maintained: https://github.com/daler/gffutils

bgruening commented 9 years ago

Try with the following program:

[ ] antismash
[ ] augustus
[ ] glimmer
[ ] iprscan5
[ ] minced
[ ] RepeatMasker

remimarenco commented 8 years ago

In a near future, I will be trying gffutils with:

augustus
glimmer
RepeatMasker

I will update this issue throughout my testing :)

bgruening commented 8 years ago

@remimarenco in https://github.com/bgruening/galaxytools/pull/276 are already initial gffutils wrappers. Feel free to improve them!