☆19May 12, 2026Updated 2 months ago
Alternatives and similar repositories for spatialdata-sandbox
Users that are interested in spatialdata-sandbox are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆67Jul 2, 2026Updated 2 weeks ago
- Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.☆18Oct 8, 2025Updated 9 months ago
- An application to display spatial and single-cell experiment data. Built in React, on the Vitessce framework.☆15Nov 3, 2025Updated 8 months ago
- SpatialCorr: Identify gene sets with spatially varying correlation☆18Jan 2, 2024Updated 2 years ago
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Evaluating the quality of a cell segmentation method without reference.☆13Jul 26, 2025Updated 11 months ago
- Lazily load multiscale whole-slide images with openslide and dask☆33Dec 6, 2022Updated 3 years ago
- Various parts made for fluorescence microscopy + optics work☆18Jul 22, 2019Updated 6 years ago
- Process and analyze surfaces using vedo in napari.☆25May 13, 2024Updated 2 years ago
- A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, i…☆31Mar 14, 2025Updated last year
- Python API and Jupyter widget for Vitessce☆67Jun 10, 2026Updated last month
- Running ImJoy plugins in Jupyter notebooks☆11Jan 10, 2023Updated 3 years ago
- ☆100Jul 2, 2026Updated 2 weeks ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆71Apr 24, 2026Updated 2 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Napari plugin for vollseg☆14Jul 16, 2025Updated last year
- Single-cell spatial omics analysis that makes you happy!☆70Jul 13, 2026Updated last week
- End-to-end model for cell segmentation and classification☆23Jan 13, 2025Updated last year
- ☆23Mar 26, 2021Updated 5 years ago
- An open and interoperable data framework for spatial omics data☆382Updated this week
- Perform differential expression analysis on multi-sample single cell datasets using linear mixed models☆34Jul 2, 2026Updated 2 weeks ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆89Nov 16, 2025Updated 8 months ago
- Static plotting for spatialdata☆82Jul 10, 2026Updated last week
- This is a repository for the Automated Microscopy Control Environment.☆10Jan 6, 2022Updated 4 years 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.
- Deep learning based spot detection for FISH images.☆34Jan 7, 2026Updated 6 months ago
- Python program to generate NetworkX graphs from segmented images.☆14Apr 14, 2023Updated 3 years ago
- Bio-Formats image file format to raw format converter☆109Jun 30, 2026Updated 3 weeks ago
- A minimalistic napari plugin to create and save regions of interest and annotations on series of images☆19Apr 8, 2025Updated last year
- Program and links to the material for the GloBIAS Training School 2025, Kobe, Japan.☆22Oct 27, 2025Updated 8 months ago
- VISION is a sophisticated software tool specifically designed to analyze and process biological and microscopic images.☆10Jul 25, 2024Updated last year
- "Defragmentation TS2: bringing BioImage Analysts to the cloud!” training school for the new generation of bioimage analysts. Topics: work…☆10Jun 6, 2023Updated 3 years ago
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆109Jul 13, 2026Updated last week
- ilastik plugin for napari☆15Mar 2, 2026Updated 4 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Python package for writing 5D numpy arrays to HDF5 files readable by both Imaris and BigDataViewer☆12Aug 13, 2021Updated 4 years ago
- Integrated pipeline for multiplexed image analysis☆107Jan 7, 2026Updated 6 months ago
- Spatial alignment of single cell transcriptomic data.☆370Jul 1, 2025Updated last year
- A 3D interactivity toolbox for napari☆37Jul 8, 2025Updated last year
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆38Sep 23, 2025Updated 9 months ago
- Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.☆166Updated this week
- Command-line client for Fractal☆49Jul 13, 2026Updated last week