adf-ncgr
commented
1 year ago Hi Steven- regarding GCV incorporation, I think this is done already, though the 26 are living in their own special datasource (accessible through gcv.soybase.org): **
** It might well be worth redoing in a more formalized way (e.g. using Nathan's scripted approach for a docker build from the datastore); but before we go there it's probably worth asking if we want to continue to keep them somewhat separate as pictured above rather than folding everything into the one "SoyBase" source. I think @maxglycine has formerly had some desire to keep "SoyBase" limited to USDA materials, or maybe some even more restrictive criterion- though we may have already blown that by including the "IGA" set.
I myself am by no means clear on what end-users would find most convenient, although in the current GCV implementation it is somewhat helpful to divide things up a la federation, if for no other reason than to allow people not to request more computation than they really want (otherwise you can only post-filter unwanted genomes after the requests and calculations have been made to a monolithic datasource; in principle, we could add up-front query params, but so far we haven't done it).
I suppose similar "lump or split" questions could be asked about other apps, but it's probably most relevant for GCV given that it was built to unify splitters (much like the Judean People's Front).
sammyjava
StevenCannon-USDA
Main steps for adding new genome and annotation collections
Genus/species/collection names:
These have been added, for under genomes/ and annotations/, for both Glycine max (23) and Glycine soja (3)