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
  ☆115Updated 7 months ago
• OmicsML / CellPLM
  Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
  ☆99Updated last year
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆73Updated last year
• daviddaiweizhang / istar
  ☆147Updated 10 months ago
• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆123Updated 5 months ago
• snap-stanford / UCE
  UCE is a zero-shot foundation model for single-cell gene expression data
  ☆224Updated 8 months ago
• cantinilab / scPRINT
  🏃 The go-to single-cell Foundation Model
  ☆117Updated last week
• JinmiaoChenLab / SpatialGlue
  SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.
  ☆71Updated last year
• EperLuo / scDiffusion
  A model developed for the generation of scRNA-seq data
  ☆78Updated 8 months ago
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆63Updated last week
• SuperBianC / scMulan
  Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.
  ☆59Updated last year
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆95Updated last week
• clinicalml / sc-foundation-eval
  Code for evaluating single cell foundation models scBERT and scGPT
  ☆46Updated last year
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆74Updated 2 years ago
• snap-stanford / SATURN
  ☆143Updated last year
• kpcoleman / miso
  ☆31Updated 9 months ago
• JackieHanLab / TOSICA
  Transformer for One-Stop Interpretable Cell-type Annotation
  ☆144Updated last year
• nitzanlab / biolord
  ☆86Updated last year
• const-ae / linear_perturbation_prediction-Paper
  ☆58Updated 3 months ago
• rajewsky-lab / openst
  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
  ☆106Updated 4 months ago
• sanderlab / scPerturb
  scPerturb: A resource and a python/R tool for single-cell perturbation data
  ☆151Updated 8 months ago
• mexchy1000 / CellDART
  domain adaptation of spatial and single-cell transcriptome
  ☆28Updated last year
• JinmiaoChenLab / GraphST
  ☆138Updated last year
• BoevaLab / CancerFoundation
  CancerFoundation: A single-cell RNA sequencing foundation model to decipher drug resistance in cancer
  ☆28Updated 2 months ago
• sunericd / TISSUE
  TISSUE (Transcript Imputation with Spatial Single-cell Uncertainty Estimation) provides tools for estimating well-calibrated uncertainty …
  ☆40Updated last year
• Genentech / SpatialAgent
  ☆132Updated 7 months ago
• siyuh / Squidiff
  ☆42Updated last week
• ZJUFanLab / scCube
  an SRT simulator for simulating multiple spatial variability in spatial resolved transcriptomics and generating unbiased simulated SRT da…
  ☆25Updated 8 months ago
• biomed-AI / CellFM
  ☆85Updated 2 months ago
• jianhuupenn / SpaGCN
  SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph con…
  ☆243Updated 2 years ago