Difference between revisions of "WormBase-Caltech Weekly Calls"

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[[WormBase-Caltech_Weekly_Calls_2017|2017 Meetings]]
 
[[WormBase-Caltech_Weekly_Calls_2017|2017 Meetings]]
  
 +
[[WormBase-Caltech_Weekly_Calls_2018|2018 Meetings]]
  
GoToMeeting link: https://www.gotomeet.me/wormbase1
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[[WormBase-Caltech_Weekly_Calls_2019|2019 Meetings]]
  
  
= 2018 Meetings =
+
GoToMeeting link: https://www.gotomeet.me/wormbase1
 
 
[[WormBase-Caltech_Weekly_Calls_January_2018|January]]
 
 
 
[[WormBase-Caltech_Weekly_Calls_February_2018|February]]
 
 
 
[[WormBase-Caltech_Weekly_Calls_March_2018|March]]
 
 
 
[[WormBase-Caltech_Weekly_Calls_April_2018|April]]
 
 
 
[[WormBase-Caltech_Weekly_Calls_May_2018|May]]
 
  
[[WormBase-Caltech_Weekly_Calls_June_2018|June]]
+
= 2020 Meetings =
  
[[WormBase-Caltech_Weekly_Calls_July_2018|July]]
+
[[WormBase-Caltech_Weekly_Calls_January_2020|January]]
  
  
== August 2, 2018 ==
+
== February 6, 2020 ==
  
=== AFP ===
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=== Worcester Area Worm Meeting talk ===
 +
* Confirmed for December 2020 or February 2021
  
* The AFP pipeline is currently emailing authors from karen's e-mail address
+
=== Alaska software ===
* Use same e-mail account Chris is using for phenotype community curation requests or create a new account for AFP (gmail)
+
* Code developed and maintained by Joseph, but not long term solution
* Can use outreach@wormbase.org for consistency
+
* Raymond and Eduardo talked about taking it over
* May use the PMID in the subject line so e-mails will not be all in the same thread
+
* Why have a web application vs. a command-line application?
* Todd and Chris have email credentials
+
** Wanted to make it easy, but also to capture meta data for WB
** Chris will send to Valerio, Juancarlos, Daniela, and Kimberly
+
* Should/will find out from Joseph about how hard it is to maintain the software
* Let Valerio and Juancarlos know what pipelines use AFP before they modify
+
* Maybe it could be taken over by Alliance, as RNA-Seq/Microarray meta data are getting harmonized
* Do curators still want to receive emails when authors flag their data type?
+
* Expression working group working with Brian Oliver to have GEO take in more structured meta data
** We will leave the alert emails as is for now
+
* Array Express tried requiring more structured meta data, but authors stopped submitting
 +
* May be possible to build a form that collects meta data while simultaneously submitting to GEO in parallel
  
  
== August 9, 2018 ==
+
== February 13, 2020 ==
  
=== AFP ===
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=== Alliance Literature Group ===
* SAB advised to include disease models.
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* Held first meeting on Monday, February 10th
* The AFP group will work with Ranjana to incorporate it. Ranjana will prepare a mock by next week.
+
* Regular meetings will be on Tuesdays at 10am/1pm/6pm
* We will then decide if using the existing afp_humdis tables or if creating new ones.
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* Representatives from each group will give a brief overview of their literature pipelines before the group gets into details about deliverables
 +
* Question about centralized paper repository; group needs guidance from Alliance PIs on how to proceed
  
 +
=== ?Genotype class model ===
 +
* [https://docs.google.com/document/d/19hP9r6BpPW3FSAeC_67FNyNq58NGp4eaXBT42Ch3gDE/edit?pli=1#bookmark=id.7r3e8pg19rd8 Proposal]
 +
* Can aim to implement for WS277 but may have to wait until WS278
  
=== tazendra ===
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=== Genotype OA ===
 +
* Will put documentation [[Genotype|here]]
  
* Shall we move tazendra,caltech.edu to the cloud? Either WormBase cloud or Caltech cloud?
+
=== WB All-Hands Meeting ===
 +
* [https://doodle.com/poll/7f65p4ba6d88ztzt Doodle poll]
 +
* Any thoughts at this point?  Still need to discuss with Hinxton, Toronto.

Latest revision as of 19:30, 13 February 2020

Previous Years

2009 Meetings

2011 Meetings

2012 Meetings

2013 Meetings

2014 Meetings

2015 Meetings

2016 Meetings

2017 Meetings

2018 Meetings

2019 Meetings


GoToMeeting link: https://www.gotomeet.me/wormbase1

2020 Meetings

January


February 6, 2020

Worcester Area Worm Meeting talk

  • Confirmed for December 2020 or February 2021

Alaska software

  • Code developed and maintained by Joseph, but not long term solution
  • Raymond and Eduardo talked about taking it over
  • Why have a web application vs. a command-line application?
    • Wanted to make it easy, but also to capture meta data for WB
  • Should/will find out from Joseph about how hard it is to maintain the software
  • Maybe it could be taken over by Alliance, as RNA-Seq/Microarray meta data are getting harmonized
  • Expression working group working with Brian Oliver to have GEO take in more structured meta data
  • Array Express tried requiring more structured meta data, but authors stopped submitting
  • May be possible to build a form that collects meta data while simultaneously submitting to GEO in parallel


February 13, 2020

Alliance Literature Group

  • Held first meeting on Monday, February 10th
  • Regular meetings will be on Tuesdays at 10am/1pm/6pm
  • Representatives from each group will give a brief overview of their literature pipelines before the group gets into details about deliverables
  • Question about centralized paper repository; group needs guidance from Alliance PIs on how to proceed

?Genotype class model

  • Proposal
  • Can aim to implement for WS277 but may have to wait until WS278

Genotype OA

  • Will put documentation here

WB All-Hands Meeting

  • Doodle poll
  • Any thoughts at this point? Still need to discuss with Hinxton, Toronto.