You are viewing an old version of this page. View the current version.

Compare with Current View Page History

« Previous Version 13 Next »

Date

Attendees

Goals

Discussion items

TimeItemWhoNotes
 

combine genotype experiments

Jean-Luc

This could be done in the select lines by "genotype" page. Limit combining to same platform (9K, 90K, GBS). In cases where lines duplicate, the name can be altered (_duplicate)

Decided to combine 2 genotype experiments into 1 experiment then we will not need to change tools

 schedule dates of operating system upgradeClay Birkett, David Hane

install Ubuntu 14.04 on tcap machine. We need to allocate several days when no updates are allowed on production machine

operating system upgrade scheduled for weekend of Feb 19th

 new TCAP hardware? 

plan on adding a new server this summer

 genotype data loading 
  1. merging lines with 50% genotype conflicts (these are not the same line)
  2. Nick/Shiaoman (haplotag) will submit VCF file (Oat)
  3. others? Jeffery (Kevin from MN), Rich (Barley 9K ND)
 harvesting QTLs 
  1. added link for JBrowse, marker, and trial count
  2. added trait description and ontology
  3. added QTLs from imputed genotypes
  4. added grouping by marker and gene
  5. how to combine p values? Do you through out disease trials? Do we need confidence interval for qtl loci?
 problems with DNS and email on T3 machinesClay Birkett, David Hane
  1. email still not delivered to some sites because of USDA limitations

Action items

  1. combine TCAP90K_HWWAMP and TCAP90K_HWWAMP_R.
  2.  Remove TCAP90K_HWW_Panel

Clayton L Birkett

  1. Either replace average q-value with weighted z-value or
  2. Only indicate the number of significant qtl's

  • No labels