qurro
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biocore
Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
This will let us deal with taxonomy strings that include spaces (e.g. `k__Bacteria; p__Proteobacteria; c__Gammaproteobacteria; o__Oceanospirillales; f__Halomonadaceae; g__Candidatus Portiera; s__`), because those apparently exist. Huh. This will also make things...
Apparently Q2 does this automatically in view.qiime2.org. Would be nice to do something like this in Qurro (just to say "hey Qurro requires JS to function" or something)—but low priority,...
This would go a long way towards making the tool handle large datasets (e.g. central park soils) better. I imagine we'd delegate some or all of `RRVDisplay.changeSamplePlot()` to a web...
There are duplicated versions of the "sleep apnea" and "red sea" test datasets in this repository right now. They're contained in both `qurro/tests/input/` and `example_notebooks/.../input/` (sleep apnea is used for...
Currently, we expect the counts data to be organized something like `{Feature 1: {Sample 1: ... }}`, instead of the other way around. But the default `.to_dict()` call on the...
Lisa and I were talking about this recently. @mortonjt do you think this could be useful?
## Motivation For the EMP dataset I'm working with right now, it takes a super long time to convert the `biom.Table` object to a dataframe (even a sparse one). Filtering...