Projects update meeting 2022-04-06

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  • Members: David, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia
  • Present: avid, Huaiyu, Kimberly, Pascale, Seth, Suzi, Paul, Chris, Cynthia
  • Regrets:


Google drive move

Project updates

Task Matrix

Main tasks - Jan-July 2022 Needs updating for April

Completed projects?

Project status

Ongoing data QC and pipeline maintenance

  • AspGD being taken off line- will now load from GOA:
  • EXP Annotations by AspGD
    • (3434) Aspergillus nidulans FGSC A4
    • (981) Aspergillus fumigatus
    • (431) Aspergillus niger CBS 513.88
    • (354) Aspergillus oryzae RIB40

NEO load of Swiss-Prot reviewed entries

Blocking for Swiss-Prot curators to make models

Alliance software support

Need to define PI, deliverables, resource

Ontology single step BP jamboree this week

Monday - Thursday

Noctua Training

  • Training session with ZFIN curators, Thursday, April 14th (David, Kimberly)

Shallow Model Copy

Currently active projects

Project name Link to GH project Resources: PI, PO, TL, Other resources Next review Follow up review Aligned with Matrix? Notes
Software improvement
Finalize AmiGO default relation change (Aim 3) AmiGO default relation GH project PI: Chris, PO:Chris, TL: Seth, Others: Seth 2022-04-06 Close? Yes To review and close after the next release. Webpage on relations need improvement (Chris, Pascale)
Software improvements : GO API GO API PI: Chris, PO:??, TL: Seth, Others: Sierra Review status 2022-04-20 Yes Will review at the end of April to see the status of the project
Software improvements : pipeline cleanup PLANNING Pipeline cleanup PI: Chris, PO:??, TL: Seth, Others: Seth, Dustin, Sujay? Review specs & scope 2022-04-20 Yes Planned for April
Alliance software support Alliance software support PI: , PO:??, TL: Seth, Others: 2022-04-06 No
Noctua improvement and maintenance Noctua 2021 & Noctua 2020 PI: Paul , PO: Kimberly, TL: Seth, Others: Tremayne, Jim 2022-04-05 Close? No
GO_REFs GO_REFs PI: Chris, PO: Chris, TL: Seth, Others: Sujay, some of Sierra 2022-04-20 Yes
Ongoing data QC and pipeline maintenance Ongoing data QC and pipeline maintenance PI: Chris, PO:Pascale, TL: Seth, Others: Seth, Dustin, Sujay, Jim? Ad hoc if there is a big bug Yes
Essential software maintenance Essential software maintenance PI: Chris, PO:Pascale, TL: Seth, Others: Seth, Dustin, Sujay, Jim? Ad hoc if there is a big bug Yes
Remove some main roadblocks for GO-CAM models curation (Aim 2)
NEO load of new sequences NEO load GH project PI: Chris, PO: Pascale , TL:, Seth Others: Sujay 2022-04-06 Yes Seth will look into a strategy - week of March 16th
New visual editor (Tremayne) -> ready push to Noctua prod? Visual Pathway editor GH project PI: Paul, PO: Paul, TL:, Others: Tremayne 2022-04-05 Close? Yes Ready for release to prod? Present at a future annotation call - or GOC meeting
Model copy PLANNED Old Shallow Model Copy GH project PI: Paul, PO: Kimberly, TL: Jim, Others: Tremayne 2022-04-05 - Review status Yes Aim to present at GOC meeting (or announce work is ongoing)
Simple version of automation of Noctua updates Noctua updates PI: Chris, PO: TBD, TL: Seth, Others: 2022-04-06 - Close? Yes
Complete MOD imports (Aim 2)
MOD imports MGI - WB - SGD PI: Chris, PO: Kimberly, TL: Seth, Others: David, Suzi, Dustin 2022-04-05 - MGI close? No
Annotation Extension Relation Review Annotation Extension Relation Review PI: , PO: Kimberly, TL: , Others: David, Dustin, Pascale TBD - after some projects are closed
Integrate YeastPathways in GO Cam Yeast Pathways PI: Paul, PO: , TL: Dustin, Others: 2022-04-06 No
Ontology (Aim 1)
Phylogenetic taxon constraints TC GH project - ontology repo PI: Paul, PO: Pascale, TL: Jim, Others: 2022-04-20 Yes
Outreach/usability (Aim 3)
Manage users more actively (+ all contributing groups, in particular those not attending GOC and annotation calls) PI: Mike , PO: Suzi, TL:, Others: 2022-04-xx before the GOC meeting No
Noctua training material Noctua training Project PI: Mike , PO: Suzi, TL: NA, Others: David 2022-04-20 Yes After/around the ZFIN training session
Projects to prioritize
Switch to “species” for download outputs PLANNED Improved Downloads ???? PI: , PO:, TL:, Others: 2022-03-23 - Review specs No
Noctua output PLANNING GPAD outputs- Complex Models and Redundancy Filtering PI: Chris, PO: Kimberly, TL:?, Others: Jim 2022-04-20 - Review specs
Next Noctua tasks
ECO-GO Alignment ECO-GO Alignment
Other projects