When displaying some tracks in the browser, in the wide-zoom view, some reads in the pile-up track appear dark (almost black). The color of the pile-up track quickly shifts from the ususal green to black in some areas and I can't identify a reason for it, since the underlaying reads don't seem to have consistent differences in mapping quality or amount of missmatches.
Thanks very much in advance!
Hi there,
I might need a screenshot to provide a more concrete answer.
Depending on the zoom level, the height of the reads may start to become so small that the color appears darker. You can adjust the zoom in the vertical direction directly by togging the little zoom mode button in the top-right of the plot that has a letter like "A", "F", "H" or "M" on it.
When the view zooms out to show the precomputed coverage, the Pile-Up plot will show per-base mismatch data as black so it is easy to identify areas of mutation.
Questions should be tagged FeatureRequest for asking about a non-existing feature or proposing a new idea, GeneralInquiry for general questions about GenomeBrowse or directions on how to do something, or RanIntoProblem if you want to report an issue or had difficulty getting to an expected result.
Asked: 2021-04-12 08:01:18 -0600
Seen: 536 times
Last updated: Apr 21 '21
