scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
☆109Jun 22, 2026Updated last week
Alternatives and similar repositories for scPortrait
Users that are interested in scPortrait are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Automatically annotate cell types, consistently across samples.☆24Jun 22, 2026Updated last week
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆87Nov 16, 2025Updated 7 months ago
- Registry for scverse ecosystem packages☆37Jun 22, 2026Updated last week
- An open and interoperable data framework for spatial omics data☆381Jun 24, 2026Updated last week
- 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
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Package for the analysis of Transcripts outside segmented cells in ST data☆30Jun 22, 2026Updated last week
- Interactive visualization of spatial omics data☆86May 15, 2026Updated last month
- Single-cell spatial omics analysis that makes you happy!☆69Updated this week
- Read, create and write cutting data for the Leica LMD6 & LMD7 microscope. Build reproducible workflows to calibrate, import SVG files and…☆15Jun 11, 2026Updated 3 weeks ago
- ☆99Jun 8, 2026Updated 3 weeks ago
- Unsupervised Deep Disentangled Representation of Single-Cell Omics☆70Jun 22, 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
- rapids-singlecell: GPU-accelerated framework for scRNA analysis☆378Updated this week
- Self-Supervised Vision Transformers for multiplexed imaging datasets☆64Apr 23, 2026Updated 2 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Static plotting for spatialdata☆82Jun 24, 2026Updated last week
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆41Jun 7, 2026Updated 3 weeks ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Jun 13, 2025Updated last year
- Minibatch loading for on-disk anndata files, co-developed by Lamin Labs and scverse☆67Updated this week
- Slides and Notebooks for scverse 2024☆16Sep 24, 2024Updated last year
- Framework for image and flow cytometry analysis☆33Mar 17, 2026Updated 3 months ago
- Infrastructure of AlphaX ecosystem☆54Jun 16, 2026Updated 2 weeks ago
- Python API and Jupyter widget for Vitessce☆67Jun 10, 2026Updated 3 weeks ago
- Imputing proteomics data using deep learning models☆35Jun 24, 2026Updated last 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.
- Cookiecutter template for scverse☆89Updated this week
- Build contrasts for models defined with formulaic☆13Updated this week
- ☆19May 12, 2026Updated last month
- Bayesian Segmentation of Spatial Transcriptomics Data☆207Updated this week
- WebGL-based viewer for spatially-resolved transcriptomics data☆28Jan 6, 2023Updated 3 years ago
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆136Updated this week
- Multi-omic single-cell optimal transport tools☆212Jun 22, 2026Updated last week
- ☆39Jun 3, 2026Updated 3 weeks ago
- R API and htmlwidget for Vitessce☆45Aug 13, 2025Updated 10 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Image registration (alignment) software for large microscopy images☆27Oct 15, 2023Updated 2 years ago
- Single-cell perturbation analysis☆334Updated this week
- GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems☆39Jul 11, 2025Updated 11 months ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆180Jun 16, 2026Updated 2 weeks ago
- A python package for Multiomics and Ecological Spatial Analysis (MESA)☆25Apr 8, 2025Updated last year
- ☆15Jun 27, 2025Updated last year
- R package for normalisation of spatial transcriptomics data☆18Jan 21, 2026Updated 5 months ago