Alternatives and similar repositories for MUSE

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

• AI4SCR / ATHENA
  ☆34Updated 3 weeks ago
• chenhcs / SCS
  Sub-cellular spatial transcriptomics Cell Segmentation
  ☆66Updated last year
• ElementoLab / utag
  ☆38Updated last year
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆74Updated 2 years ago
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆51Updated this week
• uhlerlab / cross-modal-autoencoders
  ☆55Updated 2 years ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆80Updated last week
• huBioinfo / CytoCommunity
  A spatial omics data analysis tool that enables both unsupervised and supervised discovery of complex tissue cellular neighborhoods from …
  ☆23Updated 3 months ago
• rendeirolab / LazySlide
  Accessible and interoperable whole slide image analysis
  ☆124Updated this week
• scverse / spatialdata-notebooks
  ☆54Updated last week
• CaiGroup / seqFISH-PLUS
  ☆52Updated 4 years ago
• snap-stanford / stellar
  ☆67Updated 2 years ago
• camlab-bioml / astir
  astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨
  ☆53Updated last month
• carpenter-singh-lab / 2022_Haghighi_NatureMethods
  High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations
  ☆49Updated 6 months ago
• daviddaiweizhang / istar
  ☆137Updated 7 months ago
• YangLabHKUST / STitch3D
  Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
  ☆66Updated last year
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆94Updated last month
• BodenmillerGroup / SCPathology_publication
  The Single-Cell Pathology Landscape of Breast Cancer
  ☆27Updated 5 years ago
• rajewsky-lab / openst
  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
  ☆102Updated last month
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆88Updated 5 months ago
• JinmiaoChenLab / SpatialGlue
  SpatialGlue is a novel deep learning methods for spatial multi-omics data integration.
  ☆66Updated last year
• nitzanlab / biolord
  ☆80Updated 11 months ago
• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆93Updated 4 months ago
• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆119Updated 2 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆69Updated last year
• BodenmillerGroup / ImcSegmentationPipeline
  A pixel classification based multiplexed image segmentation pipeline
  ☆99Updated last year
• suinleelab / contrastiveVI
  ☆55Updated last year
• tanlabcode / CelloType
  ☆52Updated 5 months ago
• mahmoodlab / MAPS
  Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications
  ☆57Updated last year
• poseidonchan / TAPE
  Deep learning-based tissue compositions and cell-type-specific gene expression analysis with tissue-adaptive autoencoder (TAPE)
  ☆57Updated last year