qurro
qurro copied to clipboard
biocore
Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
Analogous to how Emperor has an easy-to-use `emperor.Emperor` interface, shown off [here](https://biocore.github.io/emperor/build/html/examples.html#outside-the-jupyter-notebook). This probably wouldn't need to differ that much from Emperor's interface. The current way of generating Qurro plots...
See [this thread](https://github.com/biocore/empress/pull/154#discussion_r406911150) -- basically, this would mean being more conservative about filtering stuff out of the table if it isn't already in the metadata (requiring the user to specify...
### progress - [ ] rename ranking selector label - [ ] rename rank plot y-axis label - [ ] remove python code that sends a "rank type" to the...
I *think* some of the output fields you get from some tools (e.g. ALDEx2) aren't exactly log-fold changes -- stuff like the p-values included in the `FeatureData[Differential]` output (e.g. `we.ep`)...
Came up during discussion with @fedarko Might be useful to allow the user to specify a regular expression for which to search the feature space. This should hopefully allow users...
Just a little thing that'd help clarify what this tool does. I think all of the demo datasets (both the 5 we have up now and the two that'd be...
Not really important since these sources are already referenced in their respective tutorials, but we might as well be consistent.
Not super urgent, but would be a nice thing to have -- all of the current demos are standard "microbiome" datasets. This would require making a few changes -- I...
Minor usability thing -- pretty sure most of the time feature metadata stuff will be more interesting to look at than ranking stuff, especially in the case when there are...
See comments of #12 for discussion of merits of this