BodenmillerGroup / steinbockLinks
A toolkit for processing multiplexed tissue images
☆65Updated this week
Alternatives and similar repositories for steinbock
Users that are interested in steinbock are comparing it to the libraries listed below
Sorting:
- Spatial Single-Cell Analysis Toolkit☆103Updated 4 months ago
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆38Updated last year
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆91Updated last year
- Integrated pipeline for multiplexed image analysis☆99Updated 7 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆68Updated last year
- ☆75Updated this week
- comseg☆24Updated 9 months ago
- Single-cell spatial proteomics analysis that makes you happy!☆43Updated last week
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆61Updated 2 weeks ago
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆34Updated last year
- ☆39Updated last year
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆38Updated last month
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 5 months ago
- A pipeline to transform images into valuable analysis items☆15Updated 4 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆83Updated 2 weeks ago
- A pixel classification based multiplexed image segmentation pipeline☆101Updated last year
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆46Updated last year
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆242Updated this week
- Sub-cellular spatial transcriptomics Cell Segmentation☆68Updated 2 years ago
- Histology Topography Cytometry Analysis Toolbox☆69Updated 2 weeks ago
- Multiple-choice microscopy pipeline☆138Updated this week
- ☆15Updated 3 years ago
- Python package for reading imaging mass cytometry (IMC) files☆16Updated last week
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆57Updated 4 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆45Updated last week
- Interoperability between SpatialData and the Xenium Explorer☆25Updated last year
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆80Updated this week
- ☆39Updated 3 weeks ago
- Super-resolved spatial transcriptomics by deep data fusion☆74Updated 2 years ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated last week