kreshuklab / plant-segLinks
A tool for cell instance aware segmentation in densely packed 3D volumetric images
☆123Updated this week
Alternatives and similar repositories for plant-seg
Users that are interested in plant-seg are comparing it to the libraries listed below
Sorting:
- Open source Python library for building bioimage analysis pipelines☆187Updated this week
- SplineDist: Automated Cell Segmentation with Spline Curves☆69Updated last year
- A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data☆186Updated this week
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆151Updated last month
- A napari plugin for clustering objects according to their properties.☆88Updated this week
- ☆90Updated 2 weeks ago
- Feature extraction for labeled objects in images using regionprops from scikit-image☆52Updated 6 months ago
- napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool☆60Updated last year
- Transformer-based cell tracking for live-cell microscopy☆109Updated this week
- Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images☆82Updated this week
- Accelerated Pixel and Object Classifiers (APOC)☆58Updated 4 months ago
- An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.☆81Updated 2 weeks ago
- Multiple file format reading directly into napari using pure Python☆39Updated last month
- StarDist plugin for napari☆39Updated last year
- Image reading, metadata management, and image writing for Microscopy images in Python☆105Updated last month
- Interactive image stack viewing in jupyter notebooks based on ipycanvas and ipywidgets☆171Updated 6 months ago
- ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration☆156Updated 3 months ago
- Utils and convenience functions for large-scale bio-image analysis.☆58Updated 3 months ago
- Omnipose: a high-precision solution for morphology-independent cell segmentation☆125Updated last week
- A template repo used to make new napari plugins☆28Updated this week
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆35Updated 3 years ago
- AICS Segmentation (One-Way) Mirror☆45Updated 4 years ago
- A python algorithm for tracking cells in 3D deforming organs☆65Updated last week
- An introduction to bioimage analysis - http://bioimagebook.github.io☆74Updated 3 months ago
- Jupyter notebooks for deep lineage analysis of single-cell heterogeneity and cell cycling duration heritability.☆30Updated 5 years ago
- Napari Visualization tool for Trackmate > 6.0 XML files for 2/3D + time tracks. Available via pip package napatrackmater.☆18Updated last month
- Cloud-based data annotation tools for biological images☆82Updated last year
- Track and lineage visualization with btrack and Napari☆46Updated last month
- Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets☆27Updated 9 months ago
- ☆51Updated 6 months ago