Difference between revisions of "WormBase-Caltech Weekly Calls"

From WormBaseWiki
Jump to navigationJump to search
 
Line 15: Line 15:
 
[[WormBase-Caltech_Weekly_Calls_2016|2016 Meetings]]
 
[[WormBase-Caltech_Weekly_Calls_2016|2016 Meetings]]
  
−
= 2017 Meetings =
+
[[WormBase-Caltech_Weekly_Calls_2017|2017 Meetings]]
  
−
[[WormBase-Caltech_Weekly_Calls_January_2017|January]]
+
[[WormBase-Caltech_Weekly_Calls_2018|2018 Meetings]]
  
−
[[WormBase-Caltech_Weekly_Calls_February_2017|February]]
+
[[WormBase-Caltech_Weekly_Calls_2019|2019 Meetings]]
  
−
[[WormBase-Caltech_Weekly_Calls_March_2017|March]]
+
[[WormBase-Caltech_Weekly_Calls_2020|2020 Meetings]]
  
−
[[WormBase-Caltech_Weekly_Calls_April_2017|April]]
+
[[WormBase-Caltech_Weekly_Calls_2021|2021 Meetings]]
  
−
[[WormBase-Caltech_Weekly_Calls_May_2017|May]]
+
[[WormBase-Caltech_Weekly_Calls_2022|2022 Meetings]]
  
 +
[[WormBase-Caltech_Weekly_Calls_2023|2023 Meetings]]
  
−
== June 1, 2017 ==
+
==April 18th, 2024==
 +
*NNC pipeline being switched off locally and moving into the Alliance ABC.
  
−
=== Upload ===
+
==April 11th, 2024==
−
* After worm meeting, (June 27th)
+
*Caltech WS293 ace files ready for the upload
  
−
=== IWM swag ===
+
==April 4th, 2024==
−
* Rubber bracelets?
+
* Continued discussion on sustainability
−
* Left over bandanas? paid ~$1 per bandana before. We have enough for WormBase staff
+
* CZI, single cell RNAseq for Alliance -> anything happening will be few months down the road
−
* Water bottles?
+
** Data is still going to SPELL and enrichment analysis
−
* Small boxes of mints?
+
** Peter Roy asking about expression profile of a condition and find similar expression profiles (SPELL like analysis) but SPELL cannot currently deal with scRNAseq data. Wen says it is possible (regarding each cell group as an experiment). Can try loading the into SPELL. Doe it improve the function of SPELL? Only 5-10 datasets. These data are a bit different from bulk RNAseq.
−
* Will need to decide soon to have enough time for ordering
+
* Textpresso: good to have a presentation for other MODs to show Textpresso capabilities? Yes. Maybe during sprint review
 +
* Michael's presentation on LLMs - Named Entity Recognition (NER)
  
−
=== Phenotype modeling ===
+
==March 14, 2024==
−
* Chris still working on ?Phenotype_assay (?Phenotype_experiment/?Phenotype_annotation) class model
 
−
* May require a new OA that supersedes the Phenotype OA and RNAi OA
 
−
* The new model still requires the #Phenotype_info hash as long as we still want to make assertions (e.g. loss-of-function, gain-of-function, recessive, dominant) about specific perturbations (e.g. variations) in the context of the phenotype experiment
 
−
* Have tried to pull penetrance info out of the #Phenotype_info hash and into the ?Phenotype_assay model, but this would require only ever having one phenotype (or one set of phenotypes) with penetrance values per experiment
 
−
* There are several ?RNAi objects in ACEDB that refer to multiple phenotypes, each with their own remark and penetrance values. Question is whether we want to separate out all the individual phenotype observations into multiple distinct ?RNAi objects and, soon, ?Phenotype_assay objects
 
−
* If the only time we want to apply a value like "gain-of-function" or "recessive" to an allele is when a single allele is used, we could get away with keeping those tags in the ?Phenotype_assay model and not use the #Phenotype_info hash
 
−
* Chris will share the model proposal and put together some examples for next week's meeting
 
  
 +
=== TAGC debrief ===
  
−
== June 8, 2017 ==
+
==February 22, 2024==
  
−
=== IWM swag ===
+
===NER with LLMs===
−
* [https://docs.google.com/document/d/1butQQgD8OvDoly5yWOh2pbUZzoXV3RzGVbCBLemV6hU/edit Google Doc]
 
−
* We have left over tattoos, fly swatters, bandanas
 
−
* Something to identify WormBase staff? bandanas, lanyards, hats, glow sticks/necklaces?
 
  
−
=== ?Phenotype_experiment data model ===
+
* Wrote scripts and configured an LLM for Named Entity Recognition. Trained an LLM on gene names and diseases. Works well so far (F1 ~ 98%, Accuracy ~ 99.9%)
−
* New ?Phenotype_experiment data model proposal [https://docs.google.com/document/d/1YVlZxU45VoAHMmxOh-6LFGYyBbzYi5Zd2Fb9YDVkXbA/edit?usp=sharing HERE]
 
−
* ?RNAi could still be used going forward to represent the RNAi dsRNA sequence or reagent used to knockdown gene expression
 
−
** Then RNAi sequence information would not need to be stored in the new ?Phenotype_experiment object
 
−
* The phenotype connections would change in the data model
 
−
** Phenotype would no longer be directly connected to ?Variation, ?Transgene, ?RNAi, or ?Rearrangement
 
−
** Phenotypes would be associated with these objects indirectly via the ?Phenotype_experiment object
 
−
* Perturbed_gene tag could be populated automatically in most cases (from ?Variation, ?RNAi, and ?Rearrangement objects) and some cases manually when, for example, authors don't specify a mutation but just say something like "xyz-1 mutants exhibit this phenotype"
 
−
* We will change the dumping process to dump some Phenotype_info data, like variation effect (e.g. gain of function), directly into the ?Variation objects that they apply to; should make querying and displaying the data easier
 
−
* Are we trying to capture too much detail? No new detail is being added in this model; curators feel that the detail is not the rate limiting step of curation
 
−
* Querying out (or displaying) which Phenotype_info goes with which paper is currently difficult/problematic; for example the e1370 allele is annotated to the "dauer constitutive" phenotype about 20 times, but the details are all concatenated in the web display, making it impossible to tell which remark (e.g. "Table 3") goes with which paper
 
−
** Although the current data model doesn't make this type of distinction impossible, it is cumbersome and would likely benefit from a ?Phenotype_experiment class
 
−
* How do we handle cases when multiple genes are mapped to a ?Rearrangement object or ?Variation object? How do we display that multiple independent variables (e.g. alleles) are responsible for a phenotype?
 
−
** Possibility is to have phenotype table display an "Independent Variable(s)" column that displays all of the elements that likely contribute to the phenotype; at least then users are aware that multiple factors could be playing a role
 
  
−
=== Open position for WormBase ===
+
* Is this similar to the FlyBase system? Recording of presentation  https://drive.google.com/drive/folders/1S4kZidL7gvBH6SjF4IQujyReVVRf2cOK
−
* Has been posted for a little while now
 
−
* Send any suggestions to Paul
 
−
* Could announce at the IWM
 
  
−
=== Phenopackets ===
+
* Textpresso server is kaput. Services need to be transferred onto Alliance servers.
−
* Karen will send around info on Monarch phenopackets
 
−
* They've requested contact with a WB curator
 
  
 +
* There are features on Textpresso, such as link to PDF, that are desirable to curators but should be blocked from public access.
  
−
== June 15, 2017 ==
+
* Alliance curation status form development needs use cases. ref https://wiki.wormbase.org/index.php/WormBase-Caltech_Weekly_Calls#February_15.2C_2024
  
−
=== IWM Plenary talk ===
 
−
* Paul can mention SObA: need a good example to demonstrate the power of SObA
 
−
* Will also discuss AGR, community curation, micropublications, data mining tools
 
  
−
=== Micropublications ===
 
−
* Daniela and Karen have been working on booklet
 
−
** Will print ~500 copies
 
−
* Will be raffle for those who try the micropublication form ($20 voucher per day)
 
−
* Daniela finalizing poster
 
−
* Have booth next to WormBase
 
  
−
=== IWM swag ===
+
==February 15, 2024==
−
* There will be glow sticks
 
−
* Karen ordered bling lanyards for the micropublication project
 
−
** Will be limited red ones for WB staff if they want to help advertise, they do not say WormBase on them though.
 
−
* WormBase tattoos; Paul left them with Ranjana (Ranjana will bring to the meeting)
 
−
** Karen also has some from the TAGC meeting
 
  
−
=== IWM Workshop ===
+
=== Literature Migration to the Alliance ABC ===
−
* 7 minutes per talk? Should leave enough time for transitions and discussion (at the end)
+
==== Use Cases for Searches and Validation in the ABC (or, what are your common actions in the curation status form)? ====
−
* Ranjana will send email around to the group to update on the timing
+
===== Find papers with a high confidence NN classification for a given topic that have also been flagged positive by an author in a community curation pipeline and that haven’t been curated yet for that topic =====
 +
*Facet for topic
 +
*Facet for automatic assertion
 +
**neural network method
 +
*Facet for confidence level
 +
**High
 +
*Facet for manual assertion
 +
**author assertion
 +
***ACKnowledge method
 +
**professional biocurator assertion
 +
***curation tools method - NULL
  
−
=== ?Phenotype_experiment model ===
+
===== Manually validate paper - topic flags without curating =====
−
* Removed RNAi sequence specific tags, will leave in ?RNAi class so ?RNAi objects act as sequence reagents (like alleles)
+
*Facet for topic
−
* Also removed variation effect tags etc. to dump explicitly in the ?Variation etc. class
+
*Facet for manual assertion
 +
**professional biocurator assertion
 +
***ABC - no data
  
−
=== Phenopackets ===
+
===== View all topic and entity flags for a given paper and validate, if needed =====
−
* Chris joining call tomorrow with Monarch, Nematmetrix, and Knudra about WB phenotype data and phenopackets
+
* Search ABC with paper identifier
−
* Chris will relay the conversation to the rest of the group
+
* Migrate to Topic and Entity Editor
−
* Probably won't need to change curation or data model, just need to dump data in another format
+
* View all associated data
 +
* Manually validate flags, if needed
  
−
=== Chat service for IWM communciation ===
+
=== PDF Storage ===
−
* WhatsApp group?
+
* At the Alliance PDFs will be stored in Amazon s3
−
* We can probably just use Slack; will allow pop-up notifications on phone
+
* We are not planning to formally store back-up copies elsewhere
 +
* Is this okay with everyone?
  
 +
==February 8, 2024==
 +
* TAGC
 +
** Prominent announcement on the Alliance home page?
  
−
== June 29, 2017 ==
+
* Fixed login on dockerized system (dev). Can everybody test their forms?
  
−
=== Wiki login problems ===
+
==February 1, 2024==
−
* Several curators are having trouble logging in to the WormBase Wiki
+
* Paul will ask Natalia to take care of pending reimbursements
−
* Message says cookies need to be enabled, even though cookies are enabled/haven’t made changes since last login
+
* Dockerized system slow pages (OA and FPKMMine). Will monitor these pages in the future. Will look for timeouts in the nginx logs.
−
* Chris (after meeting): Seems to be resolved now
 
  
−
=== WS259 delayed ===
+
==January 25, 2024==
−
* WOBr and related tools are using/displaying WS259 data even though the rest of the site is WS258; some asynchrony
 
  
−
=== IWM ===
+
=== Curator Info on Curation Forms ===
−
* Raymond: lots of neuro data
+
* Saving curator info using cookies in dockerized forms. Can we deploy to prod?
−
** Serial reconstruction
 
−
** Activity data
 
−
** Neural pathway data
 
−
** Worm tracking systems
 
−
** Modeling
 
−
** Finding receptors/ligands for orphan ligands/receptors
 
−
* Wen
 
−
** Received questions about genomic data, SPELL, RNAseq
 
−
** People were surprised to learn about SPELL and ability to download data sets
 
−
* Ranjana
 
−
** WB workshop was well attended
 
−
**Users had a few questions about the tools
 
−
**Lots of interest in micropublications
 
−
* Kimberly
 
−
** People are using GO
 
−
** People find the ontology very large and intimidating
 
−
** Hopefully Noctua can help replace long, complex terms
 
−
* Chris
 
−
** Denis Dupuy presented a new method for displaying prevalence of transcript isoforms
 
−
** Would be good for WB to represent splice variants on a log-scale of prevalence using Denis’ program
 
−
** Denis is already in discussion with Hinxton team to try to implement
 
  
−
=== SPELL ===
+
=== ACKnowledge Author Request - WBPaper00066091 ===
−
* SPELL is still not supported/maintained; no replacement in the works
+
* I am more than willing to assist; however, the task exceeds the capabilities of the normal flagging process.
−
* ModSeek is finished; student graduated, no longer supported
 
−
* SPELL data is growing, fewer microarrays more RNAseq
 
−
* We could mention that data sets are downloadable from SPELL on WB blog/news post; recur monthly/yearly
 
−
* SPELL sometimes freezes; probably people performing large queries; could block additional users from accessing SPELL
 
−
* Wen needs to remove log files every few months to make space on the server
 
−
* Would AGR be able to support SPELL or similar tool?
 
  
−
=== Retracted papers ===
+
* The paper conducts an analysis of natural variations within 48 wild isolates. To enhance the reliability of the variant set, I utilized the latest variant calling methods along with a custom filtering approach. The resulting dataset comprises 1,957,683 unique variants identified using Clair3. Additionally, Sniffles2 was used to identify indels of >30 bp, which numbered in the thousands to tens of thousands for most wild isolates. It is worth noting that variants identified with Sniffles2 have less reliable nucleotide positions in the genome.
−
* Should be available but clearly labeled in Textpresso
+
 
−
* Curated data from retracted papers should be omitted from WB
+
* I am reaching out to inquire whether WormBase would be interested in incorporating this dataset. An argument in favor is the higher quality of my data. However, I am mindful of the potential substantial effort involved for WormBase, and it is unclear whether this aligns with your priorities.
 +
 
 +
* Should WormBase decide to use my variant data set, I am more than willing to offer my assistance.
 +
 
 +
=== Update on NN Classification via the Alliance ===
 +
* Use of primary/not primary/not designated flag to filter papers
 +
* Secondary filter on papers with at least C. elegans as species
 +
* Finalize sources (i.e. evidence) for entity and topic tags on papers
 +
* Next NN clasification scheduled for ~March
 +
 
 +
* We decided to process all papers (even non-elegans species) and have filters on species after processing.
 +
* NNC html pages will show NNC values together with species.
 +
* Show all C. elegans papers first and other species in a separate bin.
 +
 
 +
=== Travel Reimbursements ===
 +
* Still waiting on October travel reimbursement (Kimberly)
 +
* Still waiting on September and October travel reimbursements (Wen)
 +
 
 +
=== UniProt ===
 +
* Jae found some genes without uniProt IDs, but the genes are there on uniProt but without WBGene IDs.
 +
* Wen reached to Stavros and Chris to investigate WormBase and AGR angles.
 +
* Stavros escalates the issue on Hinxton Standup.
 +
* Mark checks Build scripts and WS291 results. After that, he contacted UniProt and he's working with them to figure this out.
 +
 
 +
==January 18, 2024==
 +
* OA showing different names highlighted when logging in the OA, now fixed on staging
 +
 
 +
 
 +
==January 11, 2024==
 +
* Duplicate function in OA was not working when using special characters. Valerio debugged and is now fixed.
 +
** Curators should make sure that, when pasting special characters, the duplicate function works
 +
* OA showing different names highlighted when logging in the OA, Valerio will debug and check what IP address he sees
 +
** If you want to bookmark an OA url for your datatype and user, log on once, and bookmark that page (separately for prod and dev)
 +
* Chris tested on staging and production the phenotype form and the data are still going to tazendra
 +
** Chris will check with Paulo. Once it is resolved we need to take everything that is on tazendra and put it on the cloud with different PGIDs
 +
** Raymond: simply set up forwarding at our end?
 +
* AI working group: Valerio is setting up a new account for open AI -paid membership for ChatGPT4. We can also use Microsoft Edge copilot (temporary?)
 +
* Chris getting ready to deploy a 7.0.0. public release - February 7th. Carol wanted to push out monthly releases. This will include WS291. For subsequent releases the next several releases will be WS 291 until WS292 is available.
 +
* Valerio would like to use an alliancegenome.org email address for the openAI account
 +
* New alliance drive: https://drive.google.com/drive/folders/0AFkMHZOEQxolUk9PVA
 +
** note: please move shared files that you own to new Alliance Google Drive.  Here is the link to the information that Chris Mungall sent:  For more instructions see the video and SOP here:https://agr-jira.atlassian.net/browse/SCRUM-925?focusedCommentId=40674
 +
* Alliance logo and 50 word description for TAGC> Wen will talk to the outreach WG
 +
* Name server. Manuel working on this, Daniela and Karen will reach out to him and let him know that down the road micropublication would like to use the name server API to generate IDs in bulk
 +
* Karen asking about some erroneous IDs used in the name server. Stavros says that this is not a big deal because the "reason" is not populating the name server
 +
* It would be good to be able to have a form to capture additional fields for strains and alleles (see meeting minutes August 31st 2023. https://wiki.wormbase.org/index.php/WormBase-Caltech_Weekly_Calls_2023#August_31st.2C_2023). This may happen after Manuel is done with the authentication.
 +
* Michael: primary flag with Alliance. Kimberly talked about this with the blue team. They will start bringing that over all papers and fix the remaining 271 items later.
 +
 
 +
==January 4, 2024==
 +
* ACKnowlegde pipeline help desk question:
 +
** Help Desk: Question about Author Curation to Knowledgebase (Zeng Wanxin) [Thu 12/14/2023 5:48 AM]
 +
* Citace upload, current deadline: Tuesday January 9th
 +
** All processes (dumps, etc.) will happen on the cloud machine
 +
** Curators need to deposit their files in the appropriate locations for Wen
 +
* Micropublication pipeline
 +
** Ticketing system confusion
 +
** Karen and Kimberly paper ID pipeline; may need sorting out of logistics

Latest revision as of 16:04, 18 April 2024

Previous Years

2009 Meetings

2011 Meetings

2012 Meetings

2013 Meetings

2014 Meetings

2015 Meetings

2016 Meetings

2017 Meetings

2018 Meetings

2019 Meetings

2020 Meetings

2021 Meetings

2022 Meetings

2023 Meetings

April 18th, 2024

  • NNC pipeline being switched off locally and moving into the Alliance ABC.

April 11th, 2024

  • Caltech WS293 ace files ready for the upload

April 4th, 2024

  • Continued discussion on sustainability
  • CZI, single cell RNAseq for Alliance -> anything happening will be few months down the road
    • Data is still going to SPELL and enrichment analysis
    • Peter Roy asking about expression profile of a condition and find similar expression profiles (SPELL like analysis) but SPELL cannot currently deal with scRNAseq data. Wen says it is possible (regarding each cell group as an experiment). Can try loading the into SPELL. Doe it improve the function of SPELL? Only 5-10 datasets. These data are a bit different from bulk RNAseq.
  • Textpresso: good to have a presentation for other MODs to show Textpresso capabilities? Yes. Maybe during sprint review
  • Michael's presentation on LLMs - Named Entity Recognition (NER)

March 14, 2024

TAGC debrief

February 22, 2024

NER with LLMs

  • Wrote scripts and configured an LLM for Named Entity Recognition. Trained an LLM on gene names and diseases. Works well so far (F1 ~ 98%, Accuracy ~ 99.9%)
  • Textpresso server is kaput. Services need to be transferred onto Alliance servers.
  • There are features on Textpresso, such as link to PDF, that are desirable to curators but should be blocked from public access.


February 15, 2024

Literature Migration to the Alliance ABC

Use Cases for Searches and Validation in the ABC (or, what are your common actions in the curation status form)?

Find papers with a high confidence NN classification for a given topic that have also been flagged positive by an author in a community curation pipeline and that haven’t been curated yet for that topic
  • Facet for topic
  • Facet for automatic assertion
    • neural network method
  • Facet for confidence level
    • High
  • Facet for manual assertion
    • author assertion
      • ACKnowledge method
    • professional biocurator assertion
      • curation tools method - NULL
Manually validate paper - topic flags without curating
  • Facet for topic
  • Facet for manual assertion
    • professional biocurator assertion
      • ABC - no data
View all topic and entity flags for a given paper and validate, if needed
  • Search ABC with paper identifier
  • Migrate to Topic and Entity Editor
  • View all associated data
  • Manually validate flags, if needed

PDF Storage

  • At the Alliance PDFs will be stored in Amazon s3
  • We are not planning to formally store back-up copies elsewhere
  • Is this okay with everyone?

February 8, 2024

  • TAGC
    • Prominent announcement on the Alliance home page?
  • Fixed login on dockerized system (dev). Can everybody test their forms?

February 1, 2024

  • Paul will ask Natalia to take care of pending reimbursements
  • Dockerized system slow pages (OA and FPKMMine). Will monitor these pages in the future. Will look for timeouts in the nginx logs.

January 25, 2024

Curator Info on Curation Forms

  • Saving curator info using cookies in dockerized forms. Can we deploy to prod?

ACKnowledge Author Request - WBPaper00066091

  • I am more than willing to assist; however, the task exceeds the capabilities of the normal flagging process.
  • The paper conducts an analysis of natural variations within 48 wild isolates. To enhance the reliability of the variant set, I utilized the latest variant calling methods along with a custom filtering approach. The resulting dataset comprises 1,957,683 unique variants identified using Clair3. Additionally, Sniffles2 was used to identify indels of >30 bp, which numbered in the thousands to tens of thousands for most wild isolates. It is worth noting that variants identified with Sniffles2 have less reliable nucleotide positions in the genome.
  • I am reaching out to inquire whether WormBase would be interested in incorporating this dataset. An argument in favor is the higher quality of my data. However, I am mindful of the potential substantial effort involved for WormBase, and it is unclear whether this aligns with your priorities.
  • Should WormBase decide to use my variant data set, I am more than willing to offer my assistance.

Update on NN Classification via the Alliance

  • Use of primary/not primary/not designated flag to filter papers
  • Secondary filter on papers with at least C. elegans as species
  • Finalize sources (i.e. evidence) for entity and topic tags on papers
  • Next NN clasification scheduled for ~March
  • We decided to process all papers (even non-elegans species) and have filters on species after processing.
  • NNC html pages will show NNC values together with species.
  • Show all C. elegans papers first and other species in a separate bin.

Travel Reimbursements

  • Still waiting on October travel reimbursement (Kimberly)
  • Still waiting on September and October travel reimbursements (Wen)

UniProt

  • Jae found some genes without uniProt IDs, but the genes are there on uniProt but without WBGene IDs.
  • Wen reached to Stavros and Chris to investigate WormBase and AGR angles.
  • Stavros escalates the issue on Hinxton Standup.
  • Mark checks Build scripts and WS291 results. After that, he contacted UniProt and he's working with them to figure this out.

January 18, 2024

  • OA showing different names highlighted when logging in the OA, now fixed on staging


January 11, 2024

  • Duplicate function in OA was not working when using special characters. Valerio debugged and is now fixed.
    • Curators should make sure that, when pasting special characters, the duplicate function works
  • OA showing different names highlighted when logging in the OA, Valerio will debug and check what IP address he sees
    • If you want to bookmark an OA url for your datatype and user, log on once, and bookmark that page (separately for prod and dev)
  • Chris tested on staging and production the phenotype form and the data are still going to tazendra
    • Chris will check with Paulo. Once it is resolved we need to take everything that is on tazendra and put it on the cloud with different PGIDs
    • Raymond: simply set up forwarding at our end?
  • AI working group: Valerio is setting up a new account for open AI -paid membership for ChatGPT4. We can also use Microsoft Edge copilot (temporary?)
  • Chris getting ready to deploy a 7.0.0. public release - February 7th. Carol wanted to push out monthly releases. This will include WS291. For subsequent releases the next several releases will be WS 291 until WS292 is available.
  • Valerio would like to use an alliancegenome.org email address for the openAI account
  • New alliance drive: https://drive.google.com/drive/folders/0AFkMHZOEQxolUk9PVA
  • Alliance logo and 50 word description for TAGC> Wen will talk to the outreach WG
  • Name server. Manuel working on this, Daniela and Karen will reach out to him and let him know that down the road micropublication would like to use the name server API to generate IDs in bulk
  • Karen asking about some erroneous IDs used in the name server. Stavros says that this is not a big deal because the "reason" is not populating the name server
  • It would be good to be able to have a form to capture additional fields for strains and alleles (see meeting minutes August 31st 2023. https://wiki.wormbase.org/index.php/WormBase-Caltech_Weekly_Calls_2023#August_31st.2C_2023). This may happen after Manuel is done with the authentication.
  • Michael: primary flag with Alliance. Kimberly talked about this with the blue team. They will start bringing that over all papers and fix the remaining 271 items later.

January 4, 2024

  • ACKnowlegde pipeline help desk question:
    • Help Desk: Question about Author Curation to Knowledgebase (Zeng Wanxin) [Thu 12/14/2023 5:48 AM]
  • Citace upload, current deadline: Tuesday January 9th
    • All processes (dumps, etc.) will happen on the cloud machine
    • Curators need to deposit their files in the appropriate locations for Wen
  • Micropublication pipeline
    • Ticketing system confusion
    • Karen and Kimberly paper ID pipeline; may need sorting out of logistics
Retrieved from "https://wiki.wormbase.org/index.php?title=WormBase-Caltech_Weekly_Calls&oldid=38418"