BodenmillerGroup / ImcSegmentationPipelineLinks
A pixel classification based multiplexed image segmentation pipeline
☆106Updated 2 years ago
Alternatives and similar repositories for ImcSegmentationPipeline
Users that are interested in ImcSegmentationPipeline are comparing it to the libraries listed below
Sorting:
- Spatial Single-Cell Analysis Toolkit☆108Updated last month
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆71Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆39Updated last year
- Integrated pipeline for multiplexed image analysis☆102Updated last month
- Histology Topography Cytometry Analysis Toolbox☆69Updated 3 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆95Updated 2 years ago
- A toolkit for processing multiplexed tissue images☆67Updated 3 weeks ago
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆46Updated last year
- Spatial Transcriptomics Quantification pipeline for 10x Visium and H&E-stained whole slide images☆23Updated 3 weeks ago
- Super-resolved spatial transcriptomics by deep data fusion☆73Updated 2 years ago
- R package for visualization of highly multiplexed imaging data☆34Updated 8 months ago
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆263Updated this week
- ☆53Updated 4 years ago
- Sub-cellular spatial transcriptomics Cell Segmentation☆68Updated 2 years ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated 4 months ago
- R based workflow for multiplexed imaging data☆36Updated last week
- ☆41Updated 2 weeks ago
- Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology☆128Updated 8 months ago
- Multiple-choice microscopy pipeline☆145Updated 2 weeks ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Updated 7 months ago
- ☆15Updated 3 years ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆52Updated 3 years ago
- Python package for reading imaging mass cytometry (IMC) files☆18Updated 2 weeks ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Updated 2 years ago
- ☆35Updated last week
- ☆44Updated 3 months ago
- ☆158Updated last year
- Accessible and interoperable whole slide image analysis☆181Updated last week
- ☆27Updated last year
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆45Updated 8 months ago