Toolbox for the analysis of smFISH images.
☆75Oct 31, 2023Updated 2 years ago
Alternatives and similar repositories for big-fish
Users that are interested in big-fish are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Notebooks to illustrate how BigFISH is working.☆12Sep 5, 2022Updated 3 years ago
- Tool for precise, interactive, fast and scalable FISH spot detection☆52Feb 4, 2025Updated last year
- Deep learning based spot detection for FISH images.☆34Jan 7, 2026Updated 4 months ago
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Mar 11, 2022Updated 4 years ago
- Repository to automatically process Fluorescence In Situ Hybridization (FISH) images using Cellpose and BIG-FISH (FISH-quant v2).☆17Dec 16, 2024Updated last year
- 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 JupyterBook site for napari workshop materials☆10Jul 11, 2022Updated 3 years ago
- Guides and code for 3D nuclear instance segmentation☆23Dec 2, 2025Updated 5 months ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Jun 13, 2025Updated 10 months ago
- A python tool to investigate cell overlaps in imaging-based spatial transcriptomics data.☆34Apr 29, 2026Updated last week
- ☆29Apr 26, 2024Updated 2 years ago
- A napari plugin for stitching large multi-positioning datasets in 2/3D+t using multiview-stitcher☆18Apr 20, 2026Updated 2 weeks ago
- Training resources for Students at Uni Leipzig who want to dive into bio-image data science with Python. The material will develop betwee…☆39Jul 9, 2024Updated last year
- Teaching materials and outline for the Pasteur Bioimage Analysis vour☆16Jun 2, 2025Updated 11 months ago
- Block-wise operations for large nD volumes☆45Updated this week
- 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.
- FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets☆30Apr 23, 2026Updated 2 weeks ago
- ImageJ macros and scripts written at the imaging facility MRI☆38Apr 24, 2026Updated 2 weeks ago
- Fast writing of numpy 3d-arrays into HDF5 Fiji/BigDataViewer files.☆34Aug 22, 2024Updated last year
- Kaibu -- a progressive web app for visualizing and annotating multi-dimensional images.☆35Apr 4, 2025Updated last year
- ☆19Mar 31, 2024Updated 2 years ago
- Process images using SimpleITK in napari☆23May 1, 2025Updated last year
- An automated point-set based registration algorithm for correlative light and electron microscopy (CLEM)☆21Mar 12, 2026Updated last month
- comseg☆24Feb 6, 2025Updated last year
- ☆23Mar 26, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Accurate and efficient spot detection for microscopy data☆124Feb 5, 2026Updated 3 months ago
- BIRDS plug-in on Fiji and attached jar package☆22Oct 7, 2021Updated 4 years ago
- Deconvolution of widefield microscopy images and generation of point spread functions☆60Updated this week
- MorphoFeatures code and data☆22May 4, 2023Updated 3 years ago
- starfish: unified pipelines for image-based transcriptomics☆247Updated this week
- ☆12May 6, 2024Updated 2 years ago
- A probabilistic cell typing algorithm for spatial transcriptomics.☆25Nov 6, 2025Updated 6 months ago
- ImJoy Plugin Engine for running Python plugins locally or remotely from ImJoy.io☆18Aug 16, 2022Updated 3 years ago
- WebGL-based viewer for spatially-resolved transcriptomics data☆28Jan 6, 2023Updated 3 years 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.
- FISH Iterative Cell Typing☆11Mar 24, 2024Updated 2 years ago
- Spatial analysis of FISH data☆33May 20, 2025Updated 11 months ago
- Automated Cell Toolkit☆24Oct 15, 2025Updated 6 months ago
- Repo for the CZI Imaging Team's napari plugin Alfa Cohort collaboration☆11May 14, 2021Updated 4 years ago
- dask empowered fast4dreg☆16Mar 11, 2026Updated last month
- Analyzing cellular niches in spatial transcriptomics data☆35Nov 18, 2024Updated last year
- A simple and easy-to-use Python wrapper for libCZI - a cross-platform C++ library intended for providing read and write access to CZI doc…☆27Mar 16, 2026Updated last month