Alternatives and similar repositories for geneformer

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

• Perturbation-Response-Prediction / PRnet
  PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturb…
  ☆74Updated last year
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆150Updated 2 months ago
• xCompass-AI / GeneCompass
  GeneCompass
  ☆109Updated 2 months ago
• SuperBianC / scMulan
  Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.
  ☆61Updated last year
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆242Updated 11 months ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆165Updated 11 months ago
• Genentech / SpatialAgent
  ☆136Updated 10 months ago
• theislab / CellFlow
  Modeling complex perturbations with CellFlow
  ☆118Updated this week
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆101Updated last year
• ArcInstitute / cell-eval
  Comprehensive suite for evaluating perturbation prediction models
  ☆122Updated 3 weeks ago
• tianshilu / pMTnet
  Deep Learning the T Cell Receptor Binding Specificity of Neoantigen
  ☆89Updated 3 years ago
• siyuh / Squidiff
  ☆116Updated last week
• xianglin226 / Benchmarking-Single-Cell-Perturbation
  Single-Cell (Perturbation) Model Library
  ☆91Updated 3 weeks ago
• biomed-AI / CellFM
  ☆95Updated 5 months ago
• clinicalml / sc-foundation-eval
  Code for evaluating single cell foundation models scBERT and scGPT
  ☆46Updated last year
• GET-Foundation / get_model
  A modular framework for multimodal cross-cell-type transcriptional regulation models
  ☆100Updated 5 months ago
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆85Updated 2 weeks ago
• BGIResearch / BioLLM
  ☆30Updated last month
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆69Updated 3 months ago
• cantinilab / scPRINT
  🏃 The go-to single-cell Foundation Model
  ☆138Updated last month
• Boom5426 / Awesome-Virtual-Cell
  Awesome-AI-Virtual-Cell
  ☆167Updated this week
• const-ae / linear_perturbation_prediction-Paper
  ☆70Updated 6 months ago
• microsoft / zero-shot-scfoundation
  ☆79Updated last month
• PharMolix / LangCell
  Code for "LangCell: Language-Cell Pre-training for Cell Identity Understanding".
  ☆65Updated last year
• 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
• snap-stanford / SATURN
  ☆155Updated last year
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆146Updated last year
• bm2-lab / scPerturBench
  Single-cell perturbation effects prediction benchmark
  ☆59Updated last month
• zou-group / CellVoyager
  ☆101Updated 4 months ago
• czi-ai / transcriptformer
  ☆100Updated 3 months ago