percent_mito in reality reflects the fraction not the pct
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Description
Hi @kohleman and @swalpe, in besca sw there is a param called percent_mito with scale 0-1, and thus what is plotted is the fraction of mitochondria and not the percentage.
I would prefer to really have the % (scale 0-100%) and be reflected in the QC plots. I find the fraction less visual specially when we have very low cutoffs as for nuclei (e.g 0.01 cutoff)
What do you think? Could this be updated?
Thanks a lot,
Llucia
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Research direction
Start by locating the percent_mito parameter and the QC plotting entry points in the Python code. Trace how values on the 0–1 scale are calculated and displayed, then check existing tests or plot-related checks if present. Done means percent_mito and the QC plots consistently represent percentages on a 0–100 scale, including low cutoffs such as 0.01.
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Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Feature
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 45/100