BodenmillerGroup / steinbockLinks
A toolkit for processing multiplexed tissue images
☆62Updated 2 weeks ago
Alternatives and similar repositories for steinbock
Users that are interested in steinbock are comparing it to the libraries listed below
Sorting:
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆37Updated last year
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆10Updated 2 years ago
- Spatial Single-Cell Analysis Toolkit☆92Updated last month
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated last year
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆53Updated last year
- ☆62Updated this week
- ☆34Updated 5 months ago
- R package for visualization of highly multiplexed imaging data☆32Updated 3 weeks ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆62Updated 7 months ago
- Interoperability between SpatialData and the Xenium Explorer☆23Updated 10 months ago
- Integrated pipeline for multiplexed image analysis☆90Updated 2 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆80Updated 2 months ago
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆43Updated 11 months ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆14Updated 3 years ago
- Single-cell spatial proteomics analysis that makes you happy!☆30Updated last week
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆80Updated last year
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆47Updated 3 years ago
- ☆36Updated last year
- ☆43Updated last week
- Python package for reading imaging mass cytometry (IMC) files☆15Updated last week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆30Updated 4 months ago
- Histology Topography Cytometry Analysis Toolbox☆67Updated last year
- ☆53Updated this week
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆49Updated this week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆27Updated 9 months ago
- ☆27Updated 8 months ago
- Segmentation error aware clustering for multiplexed imaging☆18Updated 5 months ago
- R based workflow for multiplexed imaging data☆32Updated this week
- Multiple-choice microscopy pipeline☆132Updated 3 months ago
- Interactive visualization of spatial omics data☆59Updated last week