yugeji

Hi @livnatje , Thank you very much for your response!! (And no worries.) In the meantime, we've been investigating the behavior of the update_w function as implemented in the link...

We have yet to investigate the robustness of the $w$ calculations in a biologically relevant setting. However, @meritback and @rengesf constructed an alternate implementation of multi-factor PMD in a linear...

Two issues come to mind: 1. The obvious - calling a set of distances one after another would look more ugly. For example, right now I can call ``` for...

For future distances that do _not_ use what is currently the standard `__call__` format of (X, Y), implementing it in the new way would let you override `onesided` with a...

An important addition to this refactor (which would also allow `classifier_cp` to be used with `pairwise`) would be to make `pairwise` include calls to `onesided` instead of using the copy-pasted...

> 1. What's the unit of abstraction that each data notebook should cover? For example, for this notebook I only included the data used to produce Fig. 1c in McFarland...

Hi bitcometz, Thanks for your question - yes, this notebook is not yet complete. We will get back to you ASAP.