QA: Genome Summary

While you are logged in…

Creating genome summary

  • Click on Create Genome Summary
  • Select NECEvent_Samples
    • For large number of datasets: Select all of them
    • For small to medium datasets: Select a subset of them
  • Click on Go to Genome Summary
    • Track the loading time
  • Click on Select organisms
    • Go through the Genome Summary - Organism Menu selection process
    • After you have selected the genomes, check the notification message has the correct number of organisms
  • Click on Select lists
    • Go through the Genome Summary - List Menu selection process
  • Verify that the genome summary is correct
    • Verify the chosen lists
    • Verify the chosen organisms

Interacting with genome summary

  • Mouse over one of the cells
    • Check the visibility of the X-axis and Y-axis labels.
    • Check the visibility of the info box and the Count
  • Mouse over the lists on X-axis at the top
    • Check only the mouseover column is highlighted
    • If an organism has more than one feature in the list, the horizontal bar should be longer
  • Freeze the vertical selection by clicking on one of the lists on the X-axis at the top
    • Click anywhere else to unfreeze the selection
  • Mouse over the organisms on the Y-axis
    • Check only the mouseover row is highlighted
    • If an organism has more than one feature in the list, the vertical bar should be longer
  • Freeze the horizontal selection by clicking an organism or one of the taxonomical hierarchy
    • Click anywhere else to unfreeze the selection

Using the dropdown menus

  • Select from the View dropdown
    • Make sure the Organism list is displayed according to its taxonomy, coverage, or user’s selection
  • Select from the Color dropdown
    • Make sure color changes
  • Select from the Cellsize dropdown
    • Make sure that cell size changes

Downloading

  • Click on SVG to make sure it can be downloaded and opened.
  • Click on TSV to make sure it can be downloaded and opened.

Changing selection

  • Click on Select organisms to change the organisms selection
    • Make sure that Genome Summary is updated accordingly
  • Click on Select lists to change the lists selection
    • Make sure that Genome Summary is updated accordingly

Saving genome summary

  • Click on Choose name
  • Enter a name and click Save Changes
  • Click on Your genome summaries to make sure that the new GS shows up on the list.

Deleting genome summary

  • Click on Delete in the Your saved genome summaries page and confirm.

While you are NOT logged in…

Repeat most of the above tests

  • except Saving and Deleting genome summary

Access other people’s GS

  • Access a particular GS: http://ggkbase-dev.berkeley.edu/genome_summaries/1035-Test-GS
  • Make any changes to the genome summary
  • Make sure that the genome summary CANNOT be saved