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;