labsyspharm / scimapLinks
Spatial Single-Cell Analysis Toolkit
☆92Updated last week
Alternatives and similar repositories for scimap
Users that are interested in scimap are comparing it to the libraries listed below
Sorting:
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆35Updated last year
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆80Updated 3 weeks ago
- Integrated pipeline for multiplexed image analysis☆91Updated 3 months ago
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆205Updated this week
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆81Updated last year
- ☆63Updated last week
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆72Updated last month
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆126Updated 2 weeks ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆38Updated this week
- ☆45Updated 2 weeks ago
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆43Updated 11 months ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆64Updated 8 months ago
- comseg☆23Updated 5 months ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆45Updated last month
- ☆54Updated this week
- Interoperability between SpatialData and the Xenium Explorer☆23Updated 11 months ago
- Sub-cellular spatial transcriptomics Cell Segmentation☆66Updated last year
- ☆36Updated last year
- Single-cell spatial proteomics analysis that makes you happy!☆30Updated this week
- Interactive visualization of spatial omics data☆61Updated this week
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆30Updated 5 months ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆53Updated 2 weeks ago
- A probabilistic cell typing algorithm for spatial transcriptomics.☆24Updated 3 weeks ago
- Histology Topography Cytometry Analysis Toolbox☆67Updated last year
- ☆56Updated 7 months ago
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆51Updated last week
- Multiple-choice microscopy pipeline☆133Updated 4 months ago
- Join subcellular Visium HD bins into cells☆112Updated last month
- A pixel classification based multiplexed image segmentation pipeline☆96Updated last year
- ☆27Updated 9 months ago