This library runs code associated with the Trellis paper which is on BioRxiv. Code to reproduce the figures in the paper can be found on the TapeLab's github repo. Note that an earlier version of MultiscaleEMD was used to run these experiments. Installing this version can be accomplished by downloading the source at this commit and installing with :code:pip install -e . from the :code:MultiscaleEMD directory.

In brief, Trellis is a method to compare single-cell dataset distributions under different treatment conditions while normalizing for multiple controls. Paired Trellis implements a Kantorovich-Rubenstein distance with tree ground distance allowing for a normalization step against a specified control per treatment.

A short how-to tutorial on Trellis is available, with associated notebook hosted on Kaggle here.