Alternatives and similar repositories for scGPT-spatial

Users that are interested in scGPT-spatial are comparing it to the libraries listed below

• theislab / nicheformer
  Repository for Nicheformer: a foundation model for single-cell and spatial omics
  ☆95Updated 5 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆73Updated last year
• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆119Updated 3 months ago
• JinmiaoChenLab / SpatialGlue
  SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.
  ☆67Updated last year
• daviddaiweizhang / istar
  ☆141Updated 8 months ago
• cantinilab / scPRINT
  single cell foundation model
  ☆103Updated this week
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆93Updated last month
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆92Updated last year
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆218Updated 6 months ago
• mexchy1000 / CellDART
  domain adaptation of spatial and single-cell transcriptome
  ☆27Updated 11 months ago
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆53Updated last week
• clinicalml / sc-foundation-eval
  Code for evaluating single cell foundation models scBERT and scGPT
  ☆46Updated last year
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆60Updated 8 months ago
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆69Updated 6 months ago
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆74Updated 2 years ago
• snap-stanford / SATURN
  ☆136Updated last year
• SuperBianC / scMulan
  Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.
  ☆61Updated last year
• vandijklab / cell2sentence
  Cell2Sentence: Teaching Large Language Models the Language of Biology
  ☆193Updated 2 months ago
• QuKunLab / SpatialBenchmarking
  ☆122Updated 3 years ago
• rajewsky-lab / openst
  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
  ☆105Updated 2 months ago
• suinleelab / contrastiveVI
  ☆56Updated last year
• gao-lab / SLAT
  Spatial-Linked Alignment Tool
  ☆88Updated 8 months ago
• romain-lopez / DestVI-reproducibility
  Reproducing the experiments of the DestVI paper
  ☆19Updated 3 years ago
• QuKunLab / SPACEL
  ☆59Updated last year
• biomed-AI / CellFM
  ☆76Updated 2 weeks ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆145Updated 6 months ago
• const-ae / linear_perturbation_prediction-Paper
  ☆49Updated last month
• nitzanlab / biolord
  ☆82Updated last year
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆145Updated last year
• YangLabHKUST / STitch3D
  Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
  ☆66Updated last year