Closed taylorreiter closed 1 year ago
- upset plot of shared lineages a. would be nice to choose which level of taxonomy this plot is made at
addressed in #23
- ability to dig into intersections from the upset plots
addressed in #23
- fraction of sample matched/unclassified colored by database a. maybe add a low-confidence portion -- taxonomic matches that had less than 50kb in the entire sample. I could used the paired palette for this -- high confidence bacteria, low confidence bacteria, etc.
The first bit is addressed in #30. I tried the second bit when implementing this, and coloring by confidence was underwhelming so I left it out -- I think this is because the low confidence things really account for a super small amount of the sample. Also, by default, the threshold bp for sourmash gather is 50kb, so this feature wouldnt really be used by that many people.
Like are used in the notebook here: https://github.com/Arcadia-Science/2022-prjna853785-sourmash/blob/main/notebooks/20220815-visualize-sourmash-taxonomy-results.ipynb
Visualizations that I think are worth including: