Alternatives and similar repositories for EFAAR_benchmarking

Users that are interested in EFAAR_benchmarking are comparing it to the libraries listed below

• jump-cellpainting / datasets
  Images and other data from the JUMP Cell Painting Consortium
  ☆181Updated last week
• broadinstitute / cellpainting-gallery
  Cell Painting Gallery
  ☆121Updated last week
• recursionpharma / maes_microscopy
  Official repo for Recursion's accepted spotlight paper at NeurIPS 2023 Generative AI & Biology workshop.
  ☆71Updated 8 months ago
• carpenter-singh-lab / 2023_Arevalo_NatComm_BatchCorrection
  Evaluating batch correction methods for image-based cell profiling
  ☆15Updated 5 months ago
• valence-labs / TxPert
  A repository for reproducing experiments from the TxPert paper
  ☆25Updated 3 weeks ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆143Updated last year
• jump-cellpainting / 2024_Chandrasekaran_NatureMethods_CPJUMP1
  ☆71Updated 11 months ago
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆53Updated 5 months ago
• sanderlab / CellBox
  CellBox: Interpretable Machine Learning for Perturbation Biology
  ☆56Updated 2 years ago
• theislab / IMPA
  ☆22Updated last year
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆114Updated last week
• microsoft / zero-shot-scfoundation
  ☆79Updated 3 weeks ago
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆96Updated 11 months ago
• royerlab / cytoself
  Self-supervised models for encoding protein localization patterns from microscopy images
  ☆80Updated 6 months ago
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆35Updated 6 months ago
• cytomining / pycytominer
  Python package for processing image-based profiling data
  ☆133Updated 3 weeks ago
• jump-cellpainting / JUMP-Target
  Lists and 384-well plate maps of compounds and genetic perturbations designed to assess connectivity in profiling assays
  ☆24Updated last year
• causalbench / causalbench-starter
  Starter repository for submissions to the CausalBench challenge for gene-gene graph inference from genetic perturbation experiments.
  ☆32Updated 2 years ago
• bunnech / cellot
  Learning Single-Cell Perturbation Responses using Neural Optimal Transport
  ☆156Updated last year
• const-ae / linear_perturbation_prediction-Paper
  ☆69Updated 6 months ago
• broadinstitute / lincs-cell-painting
  Processed Cell Painting Data for the LINCS Drug Repurposing Project
  ☆32Updated 3 years ago
• czi-ai / transcriptformer
  ☆100Updated 3 months ago
• bunnelab / virtues
  A foundation model framework for analyzing multiplexed tissue imaging data across molecular, cellular and tissue scales enabling clinical…
  ☆52Updated last week
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆61Updated 3 weeks ago
• theislab / prophet
  ☆38Updated last month
• KatarinaYuan / awesome-single-cell-foundation
  Paper collection for single cell foundation models
  ☆35Updated last year
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆134Updated last year
• BoevaLab / CancerFoundation
  CancerFoundation: A single-cell RNA sequencing foundation model to decipher drug resistance in cancer
  ☆29Updated 4 months ago
• DeepGraphLearning / scCello
  [NeurIPS 2024 Spotlight] A cell-ontology guided transcriptome foundation model
  ☆21Updated 10 months ago
• Genentech / sVAE
  ☆66Updated 2 years ago