hehouts / dynamic-duos Goto Github PK

Part of issue #2

• IBDMDB website
  • metagenomes here: https://ibdmdb.org/tunnel/public/HMP2/WGS/1818/rawfiles
  • viromes here: https://ibdmdb.org/tunnel/public/HMP2/Viromics/1732/rawfiles

Virome files look like: SM-76C9Y.tar, SM-9SIJC.tar, SM-7M8RR.tar
and I cant join them with the IBDMDB metadata table, project id number, external_id, site_sub_coll id, or anything else obvious.

If I search the suffix of a virome file name, e.g. 76C9Y from SM-76C9Y.tar on the ibdmdb_mvx_only metadata (the ibdmdb metadata, filtered for viromes) it does return a match.

What is the column that it is finding a match for??

See this from titus on his results so far.

The goal is to run grist on all (or many) of the virome samples, with the Gut Phage Database

So I know it can be done.

I have both virome and metagenome samples for one ihmp-ibd participant (c3008) but it was kind of a mess.

How did I actually do it?
What about it actually made it "a mess"?