mean expression and percentage
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- Dominant language
- Python
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Description
Dear,
Is there a function that returns mean expression and percentage of each gene in a cluster ? scanpy.api.pl.dotplot() includes these information implicitly, so perhaps it's the easiest way to return a table, not only the plot.
By the way, can the plots generated by scanpy be saved as vector graph ? Now the cell points on the plot are not in vector graph format and will be mosaic when amplified, though the letters and axes are in vector format.
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Research direction
Start at scanpy.api.pl.dotplot() and trace how the plotted gene statistics and cell points are computed and rendered. Clarify whether the requested table should contain mean expression, percentages, or both, then verify the expected vector-graphics output for saved plots; done means both requests have defined, tested behavior.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics, data-visualization
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100