fmi-basel / LSTree
LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.
☆18Updated last year
Alternatives and similar repositories for LSTree
Users that are interested in LSTree are comparing it to the libraries listed below
Sorting:
- A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/o…☆26Updated last week
- Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets☆26Updated 2 months ago
- StarDist plugin for napari☆38Updated 8 months ago
- FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets☆29Updated last week
- ☆49Updated last week
- Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.☆16Updated 2 weeks ago
- Fast4DReg is a Fiji script for quick drift correction in time-lapse 3D-stacks. The script can be used to correct drift in all x-, y- and/…☆39Updated 3 weeks ago
- Z-stack Depth Colorcode ImageJ FIJI plugin☆24Updated 4 years ago
- Process and analyze surfaces using vedo in napari.☆24Updated 11 months ago
- A napari plugin for clustering objects according to their properties.☆84Updated this week
- Lectures for a napari training course☆50Updated last year
- Browse your OMERO database from within napari.☆37Updated this week
- Automated mitochondrial segmentation and tracking.☆31Updated 3 years ago
- ZELDA: a 3D Image Segmentation and Parent to Child relation plugin for microscopy image analysis in napari☆20Updated 5 months ago
- Accurate and efficient spot detection for microscopy data☆75Updated 2 weeks ago
- Multiple file format reading directly into napari using pure Python☆36Updated 9 months ago
- "Defragmentation: bringing BioImage Analysts to the cloud!” training school for the new generation of bioimage analysts. Topics: workflow…☆15Updated 2 years ago
- dask empowered fast4dreg☆11Updated 5 months ago
- some useful function to get Label from ROIs and vice versa , and more!☆12Updated 2 years ago
- Particle tracking by solving linear assignment problem.☆52Updated last week
- A place to collect information used in lectures, demos, workshops, etc.☆17Updated 7 months ago
- ☆12Updated last year
- ☆23Updated this week
- Feature extraction for labeled objects in images using regionprops from scikit-image☆50Updated last week
- A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification☆23Updated 3 years ago
- napari plugin for trackastra☆13Updated 6 months ago
- ☆28Updated last week
- Segment images by pixel classification based on pre-trained convolutional layer feature extraction☆32Updated last month
- ☆16Updated 9 months ago
- Multi-Object Tracker using Integer Linear Equations☆30Updated last month