fmi-basel / LSTreeLinks
LSTree is a digital organoid and lineage tree extraction workflow for light sheet movies.
☆19Updated last year
Alternatives and similar repositories for LSTree
Users that are interested in LSTree are comparing it to the libraries listed below
Sorting:
- ☆51Updated 3 months ago
- Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets☆26Updated 5 months ago
- FIJI plugin for tracing of curvilinear structures in volumetric microscopy datasets☆30Updated last week
- A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/o…☆28Updated 3 months ago
- napari plugin for trackastra☆17Updated 9 months ago
- Particle tracking by solving linear assignment problem.☆57Updated last week
- ☆39Updated last month
- Multiple file format reading directly into napari using pure Python☆37Updated last year
- StarDist plugin for napari☆40Updated 11 months ago
- Transformer-based cell tracking for live-cell microscopy☆81Updated last week
- ☆20Updated last year
- Tools for distributed alignment of massive images☆85Updated 2 weeks ago
- Feature extraction for labeled objects in images using regionprops from scikit-image☆51Updated 3 months ago
- A short course exploring several fun and useful notebooks and Napari widgets for deep learning with SAM, Cellpose, Stardist and friends.☆16Updated 3 months ago
- Browse your OMERO database from within napari.☆38Updated this week
- ☆15Updated 2 weeks ago
- ☆36Updated last month
- ZELDA: a 3D Image Segmentation and Parent to Child relation plugin for microscopy image analysis in napari☆20Updated 8 months ago
- A place to collect information used in lectures, demos, workshops, etc.☆17Updated 10 months ago
- napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool☆55Updated 9 months ago
- dask empowered fast4dreg☆11Updated 8 months ago
- Cell tracking and segmentation software☆127Updated last week
- Image reading, metadata management, and image writing for Microscopy images in Python☆95Updated last month
- A napari plugin for clustering objects according to their properties.☆87Updated last week
- Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.☆17Updated 2 weeks ago
- A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification☆23Updated 3 years ago
- An automated point-set based registration algorithm for correlative light and electron microscopy (CLEM)☆18Updated 3 months ago
- A toolbox for registering / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.☆78Updated last month
- PoL Bioimage Analysis Training School: GPU-Accelerated Image Analysis Track☆28Updated last year
- "Defragmentation: bringing BioImage Analysts to the cloud!” training school for the new generation of bioimage analysts. Topics: workflow…☆15Updated 2 years ago