Alternatives and similar repositories for scFormer

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

• bowang-lab / BIONIC
  Biological Network Integration using Convolutions
  ☆62Updated last year
• Genentech / sVAE
  ☆63Updated 2 years ago
• Genentech / iterative-perturb-seq
  Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors
  ☆40Updated last year
• sanderlab / CellBox
  CellBox: Interpretable Machine Learning for Perturbation Biology
  ☆55Updated 2 years ago
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆107Updated 11 months ago
• microsoft / zero-shot-scfoundation
  ☆72Updated 11 months ago
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆50Updated 3 years ago
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆40Updated 3 weeks ago
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆50Updated 6 months ago
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆27Updated last week
• mims-harvard / PDGrapher
  Combinatorial prediction of therapeutic perturbations using causally-inspired neural networks
  ☆28Updated 2 months ago
• ArcInstitute / cell-eval
  Comprehensive suite for evaluating perturbation prediction models
  ☆65Updated last week
• openproblems-bio / neurips2021-notebooks
  ☆30Updated 3 years ago
• TuftsBCB / RegDiffusion
  Diffusion model for gene regulatory network inference.
  ☆22Updated 2 weeks ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆121Updated 6 months ago
• czi-ai / transcriptformer
  ☆62Updated last week
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆74Updated last week
• const-ae / linear_perturbation_prediction-Paper
  ☆23Updated 3 weeks ago
• bunnech / cellot
  Learning Single-Cell Perturbation Responses using Neural Optimal Transport
  ☆142Updated 9 months ago
• Bertinus / FLeCS
  Functional and Learnable Cell dynamicS
  ☆17Updated 2 months ago
• broadinstitute / lincs-cell-painting
  Processed Cell Painting Data for the LINCS Drug Repurposing Project
  ☆28Updated 3 years ago
• cole-trapnell-lab / sci-plex
  repository containing analysis scripts and auxiliary files
  ☆36Updated 5 years ago
• theislab / prophet
  ☆35Updated 3 months ago
• krishnanlab / obnb
  A Python toolkit for setting up benchmarking dataset using biomedical networks
  ☆22Updated last week
• jump-cellpainting / datasets
  Images and other data from the JUMP Cell Painting Consortium
  ☆173Updated last month
• xiaoyeye / GCNG
  using graph convolutional neural network and spaital transcriptomics data to infer cell-cell interactions
  ☆56Updated 4 years ago
• altoslabs / perturbench
  ☆34Updated 2 months ago
• theislab / ncem
  Learning cell communication from spatial graphs of cells
  ☆112Updated last year
• aristoteleo / tabula
  federated learning with tabular learning
  ☆21Updated 5 months ago
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆63Updated last year