Spatial Single-Cell Analysis Toolkit
☆113Mar 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☆154Jun 16, 2026Updated 2 weeks ago
- An Interactive Image Segmentation Filter for Multiplex Microscopy☆34Apr 9, 2026Updated 2 months ago
- ☆27Oct 23, 2025Updated 8 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆180Jun 16, 2026Updated 2 weeks ago
- ☆67Jun 15, 2026Updated 2 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.
- ☆30Oct 4, 2024Updated last year
- Static plotting for spatialdata☆82Jun 24, 2026Updated last week
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆283Jun 24, 2026Updated last week
- An open and interoperable data framework for spatial omics data☆381Jun 24, 2026Updated last week
- Interactive visualization of spatial omics data☆87Updated this week
- Python API and Jupyter widget for Vitessce☆67Jun 10, 2026Updated 3 weeks ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆13Mar 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☆251Updated this week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆44Jun 11, 2026Updated 3 weeks ago
- Piecewise alignment for layers of mosaics☆59Jun 10, 2026Updated 3 weeks ago
- ☆99Jun 8, 2026Updated 3 weeks ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆55Jun 23, 2026Updated last week
- 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.☆32Jun 22, 2026Updated last week
- ☆34Feb 25, 2025Updated last year
- ☆70Jan 18, 2023Updated 3 years ago
- Bayesian Segmentation of Spatial Transcriptomics Data☆207Jun 26, 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.
- A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)☆13Apr 30, 2026Updated 2 months ago
- 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 last month
- BANKSY: spatial clustering☆152May 30, 2026Updated last month
- ☆35Jun 23, 2026Updated last week
- ☆44May 11, 2026Updated last month
- Integrated pipeline for multiplexed image analysis☆107Jan 7, 2026Updated 5 months ago
- Spatial Multiomics Profiler for Spatial Characterization of Tissue Microenvironment (https://smprofiler.io)☆23Jun 11, 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.
- Probabilistic cell segmentation for in situ spatial transcriptomics☆180Jun 26, 2026Updated last week
- ☆34Oct 10, 2025Updated 8 months ago
- Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications☆67Mar 14, 2024Updated 2 years ago
- Threshold independent detection and localization of diffraction-limited spots.☆39Apr 8, 2026Updated 2 months ago
- ☆151Mar 20, 2026Updated 3 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