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Discussion items

Select
TimeItemWhoNotes
genotype experiments, output formatJean-Luc
  • report on what analysis functions work across all genotype calls available versus just on the consensus allele calls, and also on how easily we can adapt functions to showing nucleotide information rather than Illumina A/B.
   systemClay
  • website passed vulnerability scan
  • received quote for UPS connection
 
 works with genotype experimentsOuput FormatOatClay
  • loaded Haplotag data on T3 but waiting for a fix for marker naming error
  T3 gereralClay, Clare
  • changed link for traits (plant ontology) from Gramene to Planteome
Lines by Phenotype
 works with genotype experimentsOuput Format
Selection
Wizard  
Lines by Properties  
  
Lines by HaplotypeNoIllumina
Lines by Genotype ExperimentYes Traits and Trials  
MarkersYes Genetic Map  Clear selection
     
Analyze  
Cluster Lines by GenotypeNo 
Cluster 3D pamNo 
Cluster 3D hclustNo 
Selection Index  
Traits and Trials Histogram  
Traits and Trials Box Plot  
Traits and Trials Table  
Canopy Spectral Reflectance  
GWASYes 
Compare Trials  
Track Alleles through Pedigree  
Parse Purdy Pedigree  
Allele Data ConflictsNoIllumina
BLASTYes 
Haplotype DataNoIllumina
   
Download  
Genotype and Phenotype DataYesall types
ImputedYesVCF
SNPS and sequencYes Marker AnnotationsequenceYes 

Action items

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