BioImaging-NKI / Cellpose-FijiLinks
ImageJ macros to run Cellpose from Fiji (using the plugin from BIOP-EPFL) and to match nuclei and cell body label maps.
☆15Updated 5 months ago
Alternatives and similar repositories for Cellpose-Fiji
Users that are interested in Cellpose-Fiji are comparing it to the libraries listed below
Sorting:
- A platform for compiling, analyzing, and exploring tracking data☆47Updated last week
- Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)☆37Updated 3 months ago
- Imagej toolset to ease hyperstacks visualization and handling☆22Updated 10 months ago
- A module with convenience functions for writing Python code that interacts with OMERO.☆45Updated last week
- Lectures for a napari training course☆50Updated last year
- Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images☆80Updated this week
- QuickFigures is a toolset for creating scientific figures see publication for details☆35Updated last year
- Python scripts library for Aivia. Ask your questions on the forum >>☆15Updated 2 weeks ago
- Accurate and efficient spot detection for microscopy data☆95Updated 2 weeks ago
- Deconvolution of widefield microscopy images and generation of point spread functions☆49Updated last week
- EASI-FISH analysis pipeline for spatial transcriptomics☆35Updated 9 months ago
- A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification☆23Updated 3 years ago
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆143Updated 2 months ago
- An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.☆73Updated last month
- ☆51Updated 3 months ago
- ☆16Updated last year
- The known BioVoxxel Toolbox functions now improved for 2D and 3D images☆17Updated last month
- This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…☆134Updated 5 years ago
- ☆12Updated last year
- napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool☆55Updated 10 months ago
- StarDist plugin for napari☆40Updated last year
- A napari plugin for clustering objects according to their properties.☆87Updated this week
- A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.☆98Updated 2 years ago
- MethodsJ2☆14Updated 3 years ago
- QuPath extension for Cellsparse☆19Updated 3 months ago
- The 2025 version of cellPLATO☆15Updated 3 weeks ago
- Guides and code for 3D nuclear instance segmentation☆22Updated 2 months ago
- A first intoduction to scripting in Fiji using the ImageJ Macro language.☆26Updated 11 months ago
- PoL Bioimage Analysis Training School: GPU-Accelerated Image Analysis Track☆28Updated last year
- ImageJ macros and scripts written at the imaging facility MRI☆35Updated 2 weeks ago