Alternatives and similar repositories for cellot:

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

• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆83Updated 2 months ago
• Genentech / sVAE
  ☆58Updated last year
• theislab / cpa
  The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell leve…
  ☆96Updated 7 months ago
• theislab / sc-pert
  Models and datasets for perturbational single-cell omics
  ☆150Updated 2 years ago
• theislab / moscot
  Multi-omic single-cell optimal transport tools
  ☆144Updated this week
• HelloWorldLTY / scEval
  Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.
  ☆64Updated 2 months ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆114Updated 3 weeks ago
• theislab / chemCPA
  Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
  ☆111Updated last month
• nitzanlab / biolord
  ☆76Updated 7 months ago
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆78Updated 11 months ago
• theislab / ncem
  Learning cell communication from spatial graphs of cells
  ☆107Updated last year
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆52Updated 3 weeks ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆54Updated last week
• scverse / pertpy
  Perturbation Analysis in the scverse ecosystem.
  ☆163Updated this week
• rsinghlab / SCOT
  Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data
  ☆69Updated last year
• PayamDiba / SERGIO
  A simulator for single-cell expression data guided by gene regulatory networks
  ☆59Updated 10 months ago
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆187Updated 3 weeks ago
• theislab / prophet
  ☆29Updated this week
• cantinilab / scPRINT
  single cell foundation model for Gene network inference and more
  ☆56Updated this week
• snap-stanford / SATURN
  ☆117Updated 8 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆61Updated 9 months ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated 2 years ago
• xianglin226 / Benchmarking-Single-Cell-Perturbation
  Single-Cell (Perturbation) Model Library
  ☆42Updated 2 weeks ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆59Updated 2 years ago
• hui2000ji / scETM
  A generative topic model that facilitates integrative analysis of large-scale single-cell RNA sequencing data.
  ☆49Updated 3 years ago
• aaronwtr / PertEval
  Evaluation suite for transcriptomic perturbation effect prediction models. Includes support for single-cell foundation models.
  ☆20Updated last month
• rsinghlab / scNODE
  scNODE: Generative Model for Temporal Single Cell Transcriptomic Data Prediction
  ☆19Updated 5 months ago
• Genentech / scimilarity
  A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…
  ☆181Updated last month
• welch-lab / PerturbNet
  PerturbNet is a deep generative model that can predict the distribution of cell states induced by chemical or genetic perturbation
  ☆30Updated last month
• microsoft / zero-shot-scfoundation
  ☆57Updated 6 months ago