Repositories list

• neurodegeneration

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Sep 20, 2025Sep 20, 2025

• Spatial-Gene-Imputation-Methods

  Public
  Python

  •1•0•0•0•Updated Sep 18, 2025Sep 18, 2025

• TEMPO

  Public
  Repository for TEMPO: Identifying regulatory interactions driving cell fate transitions

  Jupyter Notebook

  •0•0•0•0•Updated Aug 26, 2025Aug 26, 2025

• trimap-tools

  Public
  Python

  •

  MIT License

  •0•1•0•0•Updated Jul 15, 2025Jul 15, 2025

• MORPH

  Public
  Jupyter Notebook

  •0•9•1•0•Updated Jul 10, 2025Jul 10, 2025

• TRIM

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Jul 2, 2025Jul 2, 2025

• APOLLO

  Public
  Jupyter Notebook

  •0•3•0•0•Updated Jun 28, 2025Jun 28, 2025

• prob_fact_design

  Public
  Code for paper "Probabilistic Factorial Experimental Design for Combinatorial Interventions"

  Jupyter Notebook

  •0•0•0•0•Updated Jun 2, 2025Jun 2, 2025

• PUPS

  Public
  Jupyter Notebook

  •

  Other

  •3•16•1•0•Updated May 14, 2025May 14, 2025

• DisentangledSSL

  Public
  Code for paper: "An Information Criterion for Controlled Disentanglement of Multimodal Data"

  Python

  •1•2•0•0•Updated Feb 28, 2025Feb 28, 2025

• image2reg

  Public
  Code for the paper "Image2Reg: Linking Chromatin Images to Gene Regulation using Genetic Perturbation Screens"

  Jupyter Notebook

  •1•7•0•0•Updated Feb 18, 2025Feb 18, 2025

• porcelan

  Public
  Detecting lineage-related gene expression patterns

  Jupyter Notebook

  •

  MIT License

  •1•3•0•0•Updated Jan 29, 2025Jan 29, 2025

• MODES

  Public
  Decoupled multimodal representation fusion

  Python

  •0•3•0•0•Updated Jan 22, 2025Jan 22, 2025

• bmtm-mle

  Public
  Investigating the MLE of Brownian Motion Tree Models given 1-sample

  Python

  •0•2•0•0•Updated Jan 19, 2025Jan 19, 2025

• observational-crl

  Public
  Jupyter Notebook

  •0•2•0•0•Updated Oct 30, 2024Oct 30, 2024

• sccvae

  Public
  Single-cell Causal VAE

  Python

  •1•2•0•0•Updated Oct 28, 2024Oct 28, 2024

• server_tutorial

  Public
  Code for using the GPU server

  Python

  •2•0•0•0•Updated Sep 9, 2024Sep 9, 2024

• adhesome_clustering

  Public
  Jupyter Notebook

  •0•1•0•0•Updated Jul 12, 2024Jul 12, 2024

• synthetic_lethality

  Public
  Jupyter Notebook

  •0•3•1•0•Updated Jun 18, 2024Jun 18, 2024

• CCPG

  Public
  Jupyter Notebook

  •1•4•0•0•Updated Jun 10, 2024Jun 10, 2024

• DCISprogression

  Public
  Jupyter Notebook

  •0•3•0•0•Updated May 22, 2024May 22, 2024

• graphical_models

  Public
  Implementations of common graphical models, utilities for creating random graphs, and sampling from graphical models.

  graphical-models

  HTML

  •

  Other

  •5•11•3•1•Updated Apr 22, 2024Apr 22, 2024

• InfoCORE

  Public
  Code for paper: "Removing Biases from Molecular Representations via Information Maximization"

  Python

  •0•20•0•0•Updated Apr 4, 2024Apr 4, 2024

• discrepancy_vae

  Public
  code for paper: Identifiability Guarantees for Causal Disentanglement from Soft Interventions

  Jupyter Notebook

  •3•16•0•0•Updated Nov 27, 2023Nov 27, 2023

• actlearn_optint

  Public
  Active learning for optimal intervention design in causal models

  Jupyter Notebook

  •

  MIT License

  •6•16•1•0•Updated Nov 8, 2023Nov 8, 2023

• meek_sep

  Public
  Source code for paper: Meek Separators and Their Applications in Targeted Causal Discovery

  Jupyter Notebook

  •0•0•0•0•Updated Nov 7, 2023Nov 7, 2023

• aging_transcriptome_and_chromatin

  Public
  HTML

  •0•1•0•0•Updated Nov 7, 2023Nov 7, 2023

• kernel_tf

  Public
  Code for transfer learning with kernels

  Python

  •

  MIT License

  •0•2•0•0•Updated Aug 10, 2023Aug 10, 2023

• STACI

  Public
  Jupyter Notebook

  •3•14•0•0•Updated Aug 9, 2023Aug 9, 2023

• causal-imputation-synthetic-interventions

  Public
  Jupyter Notebook

  •3•0•0•0•Updated Jun 11, 2023Jun 11, 2023