Hackathon: bioinformatics topics and brainstorming!

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note that several of the projects below involve software or journal publications, and authorship will be proffered for contributions ;)

chill-filter project and Web site for sample screening

activities: testing, brainstorming, ui, help, docs, functionality, videos, testing, coding, hosting , examples. Send to kj. multiple databases. (gtdb phylum?), actually using rocksdb with fmg, graphics/plotting Edge cases. improved visualization. writing. Plants and database prep. Setup in the cloud.

sourmash betterplot plugin improvements

new viz types, improved documentation

sourmash

misc Sourmash and branchwater issues

sourmash pangenomics

• pangenome protein
• pangenome generally; roary

AMR hacking

Working on antimicrobial resistance approaches: fine tuning ,validation, and/or sourmash stuff.

CAMI challenge

Getting up to speed on the new cami challenge web site.

Differential strain search via k-mers

CAn we do large scale search for different strains, e.g. everything related to strain A (and closer to A than strain B, C, D, E?)

[ctb]

(you are welcome to come by for whatever time(s) you are free! no need to attend the whole thing!)

[ctb]

chill filter public web site is: http://chill-filter.idyll.org:5000/

The source code is here: https://github.com/dib-lab/chill-filter/

with a quickstart in the README.