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1. mcgilldinglab/UNAGI mcgilldinglab/UNAGI Public

   UNAGI: deep generative AI for virtual disease and unsuperivsed in-silico perturbations.

   Jupyter Notebook 55 13

2. mcgilldinglab/MATES mcgilldinglab/MATES Public

   A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data

   Jupyter Notebook 32 5

3. SUICA SUICA Public

   [ICML 2025] Code for SUICA: Learning Super-high Dimensional Sparse Implicit Neural Representations for Spatial Transcriptomics.

   Python 20

4. ZeroInflatedNegativeBinomial_VAE ZeroInflatedNegativeBinomial_VAE Public

   An example Variational AutoEncoder built in pytorch for single-cell data with a Zero Inflated Negative Binomial (zinb) distribution or Negative Binomial (nb) distribution

   Python 7 1