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GMOD / jbrowse

JBrowse 1, a full-featured genome browser built with JavaScript and HTML5. For JBrowse 2, see https://github.com/GMOD/jbrowse-components.
http://jbrowse.org
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add area graph of base quality behind alignment feature glyph #383

Open max-biodatomics opened 10 years ago

max-biodatomics commented 10 years ago

A quality score can be easily visualized without adding extra elements on viewer.It can be implemented in form of bars for a background color.

Example: image

and image

rbuels commented 10 years ago

Great idea! Assigning this to the 2.1 milestone for now.

cmdcolin commented 7 years ago

Could check out https://github.com/elsiklab/qualityglyphs has a per-base quality render as shaded colors

keiranmraine commented 7 years ago

I expect this would have a very expensive rendering cost in 30-50x sequence data. If the read sequence isn't relevant and an per-base aggregate is suitable would it not be better to pre-generate a BigWig file + track of mean or median quality.

cmdcolin commented 7 years ago

true. I guess if you really need to see a region with quality scores, you might be able to handle the slowness :)

there is maybe some virtue to seeing values for individual reads too. I thought this recent post from pacbio about igv was really cool for example http://www.pacb.com/blog/igv-3-improves-support-pacbio-long-reads/