labsyspharm / scimapLinks
Spatial Single-Cell Analysis Toolkit
☆98Updated 2 months ago
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 …☆37Updated last year
- Integrated pipeline for multiplexed image analysis☆96Updated 5 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆83Updated last month
- Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping☆88Updated last year
- A toolkit for processing multiplexed tissue images☆63Updated last month
- ☆39Updated last year
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆75Updated this week
- comseg☆23Updated 7 months ago
- ☆68Updated this week
- ☆57Updated this week
- ☆47Updated 2 months ago
- Python package for Probe set selection for targeted spatial transcriptomics.☆43Updated last week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆33Updated 11 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆130Updated this week
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆226Updated this week
- Single-cell spatial proteomics analysis that makes you happy!☆38Updated last week
- Interactive visualization of spatial omics data☆66Updated this week
- Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data☆45Updated last year
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆66Updated 10 months ago
- Sub-cellular spatial transcriptomics Cell Segmentation☆66Updated last year
- ☆37Updated last month
- ☆27Updated 11 months ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Updated 3 months ago
- Super-resolved spatial transcriptomics by deep data fusion☆74Updated 2 years ago
- Multiple-choice microscopy pipeline☆136Updated last week
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆64Updated 2 months ago
- A pixel classification based multiplexed image segmentation pipeline☆100Updated last year
- A pipeline to transform images into valuable analysis items☆14Updated 2 months ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆31Updated last week
- Interoperability between SpatialData and the Xenium Explorer☆24Updated last year