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sourmash-bio / sourmash

Quickly search, compare, and analyze genomic and metagenomic data sets.
http://sourmash.readthedocs.io/en/latest/
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sourmash YAML for database #37

Open anmwinter opened 8 years ago

anmwinter commented 8 years ago

@ctb I remember reading your blog about one use for sourmash and YAML would be to connect different researchers together.

I was wondering if such a database could help both to connect researchers and allow to search against a bunch of metagenomes.

I currently have over a 100 bat metagenomes from New Mexico and Arizona. I have completed most of the .sig for them. I would like to expand the metadata categories in the YAML files to included stuff like research group, contact, and maybe swiping some metadata categories from MGRAST. I would like to add in a link to the mash refseq70 data for each once as well. And eventually roll these into a on-line database.

I was wondering if github could be leveraged for this kinda of database with a live jupyter notebook as the interface?

ctb commented 7 years ago

Hi @bioinfonm apologies for ignoring this for so long!

You might find this: http://ivory.idyll.org/blog/2016-sourmash-sbt.html interesting. More soon.