What scloop does

How it works

1. Step 1

   Bootstrap

   Resample the cells many times and compute persistent homology on each sample.
2. Step 2

   Match

   Match loops across bootstrap samples by image homology and topological equivalence.
3. Step 3

   Score

   Assign each loop a confidence from how often and how well it reappears across samples.
4. Step 4

   Analyze

   Fit trajectories around each loop, smooth gene trends, and rank features. Match loops across datasets.