Alternatives and similar repositories for state

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

• ArcInstitute / arc-virtual-cell-atlas
  Arc Virtual Cell Atlas
  ☆470Updated last week
• biomap-research / scFoundation
  ☆380Updated last month
• theislab / single-cell-transformer-papers
  ☆335Updated 7 months ago
• snap-stanford / GEARS
  GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations
  ☆322Updated 10 months ago
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆234Updated 10 months ago
• Perturbation-Response-Prediction / PRnet
  PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturb…
  ☆71Updated last year
• Boom5426 / Awesome-Virtual-Cell
  Awesome-AI-Virtual-Cell
  ☆144Updated 2 weeks ago
• OmicsML / awesome-foundation-model-single-cell-papers
  ☆377Updated 2 weeks ago
• jkobject / geneformer
  ☆88Updated 4 months ago
• ml4bio / RNA-FM
  Nature Methods: RNA foundation model (together with RhoFold)
  ☆330Updated 7 months ago
• apeterswu / Awesome-Bio-Foundation-Models
  A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.
  ☆279Updated 7 months ago
• mims-harvard / PINNACLE
  Contextual AI models for single-cell protein biology
  ☆96Updated 10 months ago
• xianglin226 / Benchmarking-Single-Cell-Perturbation
  Single-Cell (Perturbation) Model Library
  ☆86Updated 2 weeks ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆135Updated 10 months ago
• yiqunchen / GenePT
  ☆298Updated last year
• PharMolix / LangCell
  Code for "LangCell: Language-Cell Pre-training for Cell Identity Understanding".
  ☆64Updated last year
• ArcInstitute / cell-eval
  Comprehensive suite for evaluating perturbation prediction models
  ☆113Updated last week
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆100Updated last year
• Genentech / SpatialAgent
  ☆134Updated 8 months ago
• ml4bio / RhoFold
  Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach
  ☆198Updated 7 months ago
• gersteinlab / CellForge
  ☆122Updated last month
• genbio-ai / ModelGenerator
  AIDO.ModelGenerator is a software stack powering the development of an AI-driven Digital Organism (AIDO) by enabling researchers to adapt…
  ☆100Updated 2 weeks ago
• TencentAILabHealthcare / scBERT
  ☆341Updated 2 years ago
• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆139Updated last month
• xCompass-AI / GeneCompass
  GeneCompass
  ☆103Updated 3 weeks ago
• Genentech / gReLU
  gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
  ☆312Updated 3 weeks ago
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆81Updated 10 months ago
• yhr91 / GEARS_misc
  ☆25Updated last year
• bowang-lab / BioReason
  BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model | NeurIPS '25
  ☆345Updated last week
• bowang-lab / Orthrus
  Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…
  ☆85Updated 2 weeks ago