Using Gigwa to view genotype comparison in Flapjack format

• PB home page, Tools panel(left)
  – clk Gigwa
• Gigwa home page:
  – a. Top left, Database dropdown=African Lines
  – b. Enable Browse and export
  – c. Investigate Genotypes=on 2 groups
  – d. Group 1: Choose required individual(s)
  – e. Group 2: Choose required individual(s)
  – f. clk Search
• Genotype data appears.
  – clk Download icon
• Popup
  – a. Export format= Flapjack
  – b. Keep files on server
  – c. clk Export
• Popup
  – clk “View in flapjack-byte”
• Viewer window as a large popup
  – (Optional) Open in separate window(top of popup)
• Viewer window opens in new tab
  Top of page: Controls
  Top panel: Genotype at SNP
  Bottom panel: Flapjack view(visually compare pattern)