An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.
☆88Mar 13, 2026Updated last week
Alternatives and similar repositories for SAMJ-IJ
Users that are interested in SAMJ-IJ are comparing it to the libraries listed below
Sorting:
- The known BioVoxxel Toolbox functions now improved for 2D and 3D images☆20Feb 10, 2026Updated last month
- Imagej toolset to ease hyperstacks visualization and handling☆23Feb 9, 2026Updated last month
- A place to collect information used in lectures, demos, workshops, etc.☆17Sep 26, 2024Updated last year
- Modular, object-based analysis for ImageJ/Fiji☆16Mar 12, 2026Updated last week
- Guides and code for 3D nuclear instance segmentation☆23Dec 2, 2025Updated 3 months ago
- A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification☆23Sep 11, 2021Updated 4 years ago
- Python utility and library for converting Nikon .nd2 files to pyramidal OME TIFF.☆12May 13, 2022Updated 3 years ago
- A napari plugin for direct 3D cell segmentation -- taking you through training, inference, and review of masks☆119Mar 9, 2026Updated last week
- ☆39Jul 23, 2024Updated last year
- Panoptic segmentation algorithms for 2D and 3D electron microscopy in napari☆31Mar 12, 2026Updated last week
- BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.☆130Aug 7, 2025Updated 7 months ago
- Materials for the "ImageJ/Fiji Level 2: Automation and batch processing using macros" course taught at the Wolfson Bioimaging Facility, U…☆12Jan 24, 2022Updated 4 years ago
- ImageJ macros to run Cellpose from Fiji (using the plugin from BIOP-EPFL) and to match nuclei and cell body label maps.☆20Mar 11, 2025Updated last year
- ☆12Feb 5, 2026Updated last month
- napari widgets for start-to-finish batch processing☆15Mar 1, 2026Updated 2 weeks ago
- A short course exploring several fun and useful notebooks and Napari widgets for deep learning with SAM, Cellpose, Stardist and friends.☆19Dec 9, 2025Updated 3 months ago
- SciCount is tool focused on counting and classifying of objects in image-like data and scientific images, with training and example datas…☆11Oct 24, 2023Updated 2 years 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
- Spotiflow plugin for napari☆15Feb 2, 2026Updated last month
- Cell tracking and segmentation software☆174Updated this week
- napari plugin for trackastra☆17Nov 12, 2025Updated 4 months ago
- Napari training material for a workshop by the CZI funded initiatives LIBRE hub, Napari, and several amazing volunteers☆10Sep 28, 2023Updated 2 years ago
- QuPath extension for Cellsparse☆19May 6, 2025Updated 10 months ago
- Segment Anything for Microscopy☆658Feb 27, 2026Updated 3 weeks ago
- FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets☆29Mar 11, 2026Updated last week
- Denoising via adaptive binning.☆13Jan 6, 2026Updated 2 months ago
- Z-stack Depth Colorcode ImageJ FIJI plugin☆25Nov 6, 2025Updated 4 months ago
- Course and exercises on deep learning for microscopy image analysis☆22Nov 25, 2025Updated 3 months ago
- A JupyterBook site for napari workshop materials☆10Jul 11, 2022Updated 3 years ago
- ☆13Apr 27, 2020Updated 5 years ago
- A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.☆176Jan 27, 2026Updated last month
- ImageJ macro for the analysis of foci (e.g. DNA damage) in nuclei/cells☆22Dec 9, 2025Updated 3 months ago
- ☆15Jul 29, 2022Updated 3 years ago
- Microsopic Image Analyzer (MIA)☆28Aug 19, 2025Updated 7 months ago
- Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images☆85Updated this week
- An automated point-set based registration algorithm for correlative light and electron microscopy (CLEM)☆21Mar 12, 2026Updated last week
- Napari plugin for custom analysis and visualization of lattice lightsheet and Oblique Plane Microscopy data. The plugin is optimized for …☆14Updated this week
- A tool for cell instance aware segmentation in densely packed 3D volumetric images☆124Mar 11, 2026Updated last week
- A platform for compiling, analyzing, and exploring tracking data☆49Feb 2, 2026Updated last month