QA Checklist for Cancer Browser

This is a rough draft for now

QA checklist for tracks on the cancer browser

• Tracks can have both Chromosomes and Genesets as display options, check both
  • Occasionally tracks will work in one but not the other, but give no warning of this (or only a little tiny on on their details pages)
• Speed. Does it take a long time for a dataset to load? Indicating there is no down-sampled data table, or data table is not indexed.
• Is there data on every chromosome? Any missing sections should be accounted for.
• Do the colors look okay? Are there any visual issues with the track?
• Does the clickthrough to the Genome Browser worK?
• Test mostly using heatmap, but remember to check Boxplot and Proportions modes as well
• Clinical data: Features and Feature Settings:
  • How many features are on by default? Too many will cause feature names not to display
  • Does sorting features work? Does sorting features properly sort the heatmap?
  • Use features to sanity-check data. Does gender match with X/Y, that sort of thing
  • View Feature info by using the blue button next to the Feature graph. Here, check for:
    • Feature values: do they match what gets graphed? Do they make sense? Sometimes non-numerical values get made into a numerical scale, for example.
    • Do the Feature short labels match up with their names?
    • Are there repeated features, or features with meaningless info (ie gender in an Ovarian tumor dataset)
    • Stats function: Run one or two statistical tests. Keep in mind that you have to designate subgroups in order for the function to work
• Data track documentation: it's bad. The details page should have some minor info, like wrangler, date, number of samples, and a list of features in no particularly useful order