Page History

Date

13 Mar 2019

triticumbaseredesign home page
which genotype experiments to load
allow users to download genotype data (which formats) GBS

review line names, look at subset tool to check if it will work with 1000 accessions
convert big VCF to hdf5 (check with GOBII) ask Star

ask Lucas what is largest VCF that I can load

check Akanov JBrowse (which data)

Item	Who	Notes
GrainGenes	Taner	update
T3 loading Eduard's data		review line names 2019_Diversity_90K - 1200 new markers, 56 accessions with no passport data (ask if revised or name problem) 2019_Diversity_	GBS JBrowse - could create a track with present absence for each SNP
T3 tools		Subset markers by polymorphisms - no problem with 1000 accessions, performance is only limited by the start and stop range Knetminer - Keywan noticed a problem when linking with TO number (check if other TO are valid) Download - use a permanent link for GBS files (do if simple)
triticumbase/T3		redesign home page which genotype experiments to load allow users to download genotype data (which formats) test loading of large genotype data files or use hdf5 with GOBII
Genome Canada proposal		T3 mirror in Canada - Targeted and Useful Genomics for Barley and Oat (Tugboat) https://www.genomecanada.ca/sites/default/files/2018_lsarp_-_successful_pre-application_list.pdf
WheatCAP		Primer Design Edwards 90K (not published), ask students if this data will be useful, how does this relate to wheatCAP parents		WheatCAP	Primer Design Shiny App (ask Noah for update) create accounts so users can test features.

@John Luc will ask Eduard for meeting in 2 weeks
Clayton L Birkett - given marker show which platform it was genotyped (90K platform or specific GBS genotype trial)