New genome+annotations for Wm82 gnm5 and Lee gnm3 (Varshney/Nguyen)

[StevenCannon-USDA]

Main steps for adding new genome and annotation collections

Genus/species/collection names:

What are the collection types and names? Example:

• Glycine/max/annotations/Lee.gnm3.ann1.ZYY3

• Glycine/max/genomes/Lee.gnm3.VG1C

• Glycine/max/genomes/Wm82.gnm5.NRKG

• Glycine/max/annotations/Wm82.gnm5.ann1.J7HW

• [x] Add collection(s) to the Data Store

• [x] Validate the README(s)

• [ ] Update about_this_collection.yml

• [x] Calculate AHRD functional annotations

• [x] Calculate gene family assignments (.gfa)

• [ ] Add to pan-gene set

• [ ] Load relevant mine

• [x] Add BLAST targets

• [x] Incorporate into GCV

• [ ] Update the jekyll collections listing

• [ ] Update browser configs

• [x] run BUSCO

[StevenCannon-USDA]

While the files are in preparation, I have put them here: /usr/local/www/data/annex/ @adf-ncgr - I'll add to the Glycine pan-genes next.

[adf-ncgr]

@StevenCannon-USDA I see the annotations in the annex but not the genomes; if you can point me to those as well when convenient I can run the BUSCO against them. But I'll start on the annotations.

[StevenCannon-USDA]

@adf-ncgr Oops. The genomes are now in the expected place.

[adf-ncgr]

@StevenCannon-USDA the BUSCO, gfa and gff updates (adding AHRD) are all now in the annex locations; let me know when you've moved them into datastore proper and updated the datastore-metadata repo and then we can commence some of the downstream tasks.

[jd-campbell]

• Wm gnm5 and Lee gnm3 BLAST targets on on SoyBase