Alishba Imran

Addition of cropping.py

3

Sample script to index into either time, channels, z, y, and x into an existing ome-zarr store and create a new ome-zarr store with crops. Code is currently structured as...

**Goal**: be able to sample the positive pair given a "timestep". For example, sample at timestep 1 would mean sampling the nearest timepoint. Key features: - [ ] Specify range...

Contrastive Learning Implementation

1

My understanding of the current classifier and task with 60X res data can be found here: https://docs.google.com/document/d/1j3UePmDJL_1V_9j7v3I4nLgAgKuFXXuqmlW8ZFOyTk0/edit?usp=sharing. Given this approach, we'd need to modify HCSDataModule to support triplet sampling. Specifically:...

GMM clustering and fixed compute pca

1

- [x] added GMMClustering class w/ various methods for GMM clustering using BIC and AIC - [x] fixed compute_pca so values aren't hardcoded - [x] example script to run gmm...