BodenmillerGroup / steinbockLinks
A toolkit for processing multiplexed tissue images
☆67Updated 3 weeks ago
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☆108Updated last month
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆39Updated last year
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆95Updated 2 years ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated 4 months ago
- Integrated pipeline for multiplexed image analysis☆102Updated last month
- ☆88Updated last week
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Updated 2 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆71Updated last year
- Single-cell spatial proteomics analysis that makes you happy!☆51Updated last week
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆46Updated last year
- A pipeline to transform images into valuable analysis items☆18Updated 7 months ago
- Interoperability between SpatialData and the Xenium Explorer☆25Updated last year
- Histology Topography Cytometry Analysis Toolbox☆69Updated 3 months ago
- A pixel classification based multiplexed image segmentation pipeline☆106Updated 2 years ago
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆84Updated 3 weeks ago
- Sub-cellular spatial transcriptomics Cell Segmentation☆68Updated 2 years ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Updated 7 months ago
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆35Updated last year
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆45Updated 8 months ago
- ☆41Updated 2 weeks ago
- ☆65Updated last week
- comseg☆24Updated last year
- ☆44Updated 3 months ago
- ☆59Updated 2 months ago
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆118Updated this week
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆105Updated this week
- Python package for reading imaging mass cytometry (IMC) files☆18Updated 2 weeks ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆48Updated 3 months ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆42Updated 11 months ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated 3 months ago