BodenmillerGroup / steinbock
A toolkit for processing multiplexed tissue images
☆60Updated last month
Alternatives and similar repositories for steinbock:
Users that are interested in steinbock are comparing it to the libraries listed below
- Spatial Single-Cell Analysis Toolkit☆90Updated 2 weeks ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆37Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated 11 months ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆10Updated 2 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆52Updated 11 months ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆30Updated 3 months ago
- Single-cell spatial proteomics analysis that makes you happy!☆27Updated this week
- ☆35Updated this week
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆42Updated 9 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆57Updated 6 months ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆47Updated 2 years ago
- Integrated pipeline for multiplexed image analysis☆87Updated last month
- R package for visualization of highly multiplexed imaging data☆32Updated 10 months ago
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆77Updated last year
- Interoperability between SpatialData and the Xenium Explorer☆21Updated 9 months ago
- Python package for reading imaging mass cytometry (IMC) files☆15Updated last week
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆119Updated last week
- ☆14Updated 3 years ago
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆40Updated last week
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆77Updated last month
- comseg☆19Updated 3 months ago
- R based workflow for multiplexed imaging data☆32Updated last year
- Sub-cellular spatial transcriptomics Cell Segmentation☆64Updated last year
- ☆35Updated last year
- ☆60Updated last week
- A pipeline to transform images into valuable analysis items☆11Updated last month
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆61Updated this week
- https://sparrow-pipeline.readthedocs.io/en/latest/☆26Updated this week
- Multiple-choice microscopy pipeline☆130Updated 2 months ago
- A pixel classification based multiplexed image segmentation pipeline☆95Updated last year