Spatial Single-Cell Analysis Toolkit
☆112Mar 11, 2026Updated 3 months ago
Alternatives and similar repositories for scimap
Users that are interested in scimap are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Multiple-choice microscopy pipeline☆153May 21, 2026Updated 3 weeks ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆33Apr 9, 2026Updated 2 months ago
- ☆27Oct 23, 2025Updated 7 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆177May 25, 2026Updated 2 weeks ago
- ☆66Jun 5, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆30Oct 4, 2024Updated last year
- Static plotting for spatialdata☆82Jun 7, 2026Updated last week
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆280Jun 1, 2026Updated last week
- An open and interoperable data framework for spatial omics data☆378Updated this week
- Interactive visualization of spatial omics data☆86May 15, 2026Updated 3 weeks ago
- Python API and Jupyter widget for Vitessce☆67Jun 4, 2026Updated last week
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆12Mar 3, 2023Updated 3 years ago
- Python tools for creating and manipulating OME-TIFF multi-resolution pyramid images.☆18Aug 8, 2025Updated 10 months ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆249May 5, 2026Updated last month
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆44May 27, 2026Updated 2 weeks ago
- Piecewise alignment for layers of mosaics☆59Updated this week
- ☆98Updated this week
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆56Jun 25, 2025Updated 11 months ago
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.☆32Updated this week
- ☆34Feb 25, 2025Updated last year
- ☆71Jan 18, 2023Updated 3 years ago
- Bayesian Segmentation of Spatial Transcriptomics Data☆206May 18, 2026Updated 3 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)☆13Apr 30, 2026Updated last month
- Computer simulator of multiplex tissue images from a set of user-defined parameters☆10Dec 13, 2022Updated 3 years ago
- Pixie pipeline described in Liu et al., Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering☆12Aug 3, 2023Updated 2 years ago
- ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration☆175May 14, 2026Updated 3 weeks ago
- BANKSY: spatial clustering☆151May 30, 2026Updated 2 weeks ago
- ☆34Updated this week
- ☆44May 11, 2026Updated last month
- Integrated pipeline for multiplexed image analysis☆108Jan 7, 2026Updated 5 months ago
- Probabilistic cell segmentation for in situ spatial transcriptomics☆173May 18, 2026Updated 3 weeks ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)☆23May 29, 2026Updated 2 weeks ago
- ☆34Oct 10, 2025Updated 8 months ago
- Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications☆66Mar 14, 2024Updated 2 years ago
- Threshold independent detection and localization of diffraction-limited spots.☆39Apr 8, 2026Updated 2 months ago
- ☆152Mar 20, 2026Updated 2 months ago
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆17Sep 26, 2021Updated 4 years ago
- Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…☆73Nov 4, 2024Updated last year