Gigwa: Compare one to rest of the genotypes in minicore collection

Gigwa: Compare one to all genotypes in minicore

  • PB home page, Tools panel(left); – clk Gigwa;
  • Gigwa home page:
    – a. Top left, Database dropdown=US_Peanut_minicore,
    – b. Enable Browse and export;
    – Search;
  • Genotype data appears;
    – Download icon;
  • Popup:
    – a. Export format= Flapjack,
    – b. Keep files on server;
    – Export;
  • Popup;
    – View in flapjack-byte;
  • Viewer window as a large popup;
    – (Optional) Open in separate window(top of popup);
  • Viewer window (opens in new tab)
    Controls (Top of page):
    – A. Controls Tab
    Choose a Chromosome, ex. = A02 (from A01 to B10)
    – B. Clk Color schemes Tab= Similarity to line
    Dropdown: Select line (ex., C10 from dropdown)
    – C. Clk Sorting Tab:
    c. By similarity to line (ex., C10 from dropdown);
  • VIEWER:
    – a. Top panel: Genotype at SNP of the small window in the panel below
    – b. Bottom panel: Flapjack view(visually comapre overall pattern)
    – c. Move window in flapjack view to see nucleotide details above;