Difference between revisions of "WormBase-Caltech Weekly Calls"

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=== Update on SVM pipeline ===
 
=== Update on SVM pipeline ===
 +
* New SVM pipeline: more analysis and more parameter tuning
  
 
=== Clarifying definitions of "defective" and "deficient" for phenotypes ===
 
=== Clarifying definitions of "defective" and "deficient" for phenotypes ===

Revision as of 18:04, 12 September 2019

Previous Years

2009 Meetings

2011 Meetings

2012 Meetings

2013 Meetings

2014 Meetings

2015 Meetings

2016 Meetings

2017 Meetings

2018 Meetings


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


2019 Meetings

January

February

March

April

May

June

July

August


September 12, 2019

Update on SVM pipeline

  • New SVM pipeline: more analysis and more parameter tuning

Clarifying definitions of "defective" and "deficient" for phenotypes

  • WB phenotype ontology has many "variant/abnormal" terms and distinct subclass terms for "defective/deficient"
  • Have tried to create a logical definition pattern for these terms, but the vagueness of the meaning of "defective" and how it is distinct from "abnormal" has stalled the process
  • What do we mean exactly by "defective" and how, specifically, is this distinct from "abnormal"?
  • Definitions include meanings or words:
    • "aberrant"
    • "defective"
    • "defect"
    • "defects"
    • "deficiency"
    • "disrupted"
    • "ineffective"
    • "perturbation that disrupts"
    • "variations in the ability"
    • failure to execute the characteristic response = abnormal?
    • abnormal
    • abnormality leading to specific outcomes
    • fail to exhibit the same taxis behavior = abnormal?
    • failure
    • failure OR delayed
    • failure/abnormal