Difference between revisions of "WBConfCall 2016.10.06-Agenda and Minutes"
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* They could serve as a User guide and are up-to-date. Would be good to have them published. Better to have them on WormBook? Status? | * They could serve as a User guide and are up-to-date. Would be good to have them published. Better to have them on WormBook? Status? | ||
| + | |||
| + | == WS257 == | ||
| + | |||
| + | * models deadline, upload dates etc. | ||
| + | |||
| + | == AGR working group updates/action items == | ||
| + | |||
| + | * Orthology | ||
| + | ** Panther data in WormMine | ||
| + | *** Orthology data in WormMine seems *not* to come from WormBase / AceDB | ||
| + | *** Need clarification on (a) what version of Panther was loaded, and (b) how it was loaded | ||
| + | ** Desired update frequency | ||
| + | *** Proposal is to update orthologs once per year. Are we happy with that? | ||
| + | *** Should we adjust our update cycle to accommodate this? | ||
| + | * Use case | ||
| + | * Disease-phenotype | ||
| + | **We will need to produce a data file that has all of the disease data since disease data is not available from WormMine | ||
| + | |||
| + | ==2017 Worm Meeting== | ||
| + | |||
| + | * Workshop proposals deadline: 15th November 2016 | ||
= Minutes = | = Minutes = | ||
| + | |||
| + | == WormBook chapters == | ||
| + | |||
| + | * Proposal : put chapters up on site now, at the same time trying to get them into WormBook (before it closes down) | ||
| + | * Questions: | ||
| + | ** How to deal with updates? | ||
| + | *** Micropublications a possible model for citable paragraph updates | ||
| + | ** How should we manage the website versions of the articles? | ||
| + | *** Wiki? Perhaps too difficult to maintain consistent format | ||
| + | *** Readthedocs? Content Management System? Web-team to think about this and send round some ideas | ||
| + | ** Lots of other discussion around this topic | ||
| + | |||
| + | == WormBase 257 == | ||
| + | |||
| + | * Models freeze - 7th October | ||
| + | * Upload - 27th October | ||
| + | |||
| + | == AGR working group updates == | ||
| + | |||
| + | * Orthology | ||
| + | ** Established that Panther data in WormMine came directly from Pather (via InterMine loader), rather than AceDB | ||
| + | ** TH to supply date/version of Panther that was loaded | ||
| + | * Use-case | ||
| + | ** In basic search, genes will link back to MODs | ||
| + | ** Group now working on more refined use-cases beyond basic search | ||
| + | * Disease | ||
| + | ** Disease data missing from Mines, so needs to be loaded into AGR via some other means | ||
| + | ** Disease Association GAF files? These do not contain the textual curator-written descriptions | ||
| + | ** Discussion needed with working group on data exchange mechanisms | ||
| + | * Wednesday curator calls | ||
| + | ** Curator calls will now include an update from each working group | ||
| + | ** Open to suggestions for next topics | ||
Latest revision as of 16:38, 6 October 2016
Contents
Agenda
WormBook chapters
ticket #5092 with reference to #5080 https://github.com/WormBase/website/issues/5092
- Discussion on making available on WormBase the chapters we wrote for the WormBook.
- There are 11 chapters so far -anatomy, genomic data, gene expression, phenotype, GO, Human disease, intermine, nomenclature, Process&Pathway, website, sequence homology.
- They could serve as a User guide and are up-to-date. Would be good to have them published. Better to have them on WormBook? Status?
WS257
- models deadline, upload dates etc.
AGR working group updates/action items
- Orthology
- Panther data in WormMine
- Orthology data in WormMine seems *not* to come from WormBase / AceDB
- Need clarification on (a) what version of Panther was loaded, and (b) how it was loaded
- Desired update frequency
- Proposal is to update orthologs once per year. Are we happy with that?
- Should we adjust our update cycle to accommodate this?
- Panther data in WormMine
- Use case
- Disease-phenotype
- We will need to produce a data file that has all of the disease data since disease data is not available from WormMine
2017 Worm Meeting
- Workshop proposals deadline: 15th November 2016
Minutes
WormBook chapters
- Proposal : put chapters up on site now, at the same time trying to get them into WormBook (before it closes down)
- Questions:
- How to deal with updates?
- Micropublications a possible model for citable paragraph updates
- How should we manage the website versions of the articles?
- Wiki? Perhaps too difficult to maintain consistent format
- Readthedocs? Content Management System? Web-team to think about this and send round some ideas
- Lots of other discussion around this topic
- How to deal with updates?
WormBase 257
- Models freeze - 7th October
- Upload - 27th October
AGR working group updates
- Orthology
- Established that Panther data in WormMine came directly from Pather (via InterMine loader), rather than AceDB
- TH to supply date/version of Panther that was loaded
- Use-case
- In basic search, genes will link back to MODs
- Group now working on more refined use-cases beyond basic search
- Disease
- Disease data missing from Mines, so needs to be loaded into AGR via some other means
- Disease Association GAF files? These do not contain the textual curator-written descriptions
- Discussion needed with working group on data exchange mechanisms
- Wednesday curator calls
- Curator calls will now include an update from each working group
- Open to suggestions for next topics
