Official implementation of "A novel deep learning-based 3D cell segmentation framework for future image-based disease detection". (However, I think the title should be "3DCellSeg - a robust deep learning-based 3D cell instance segmentation pipeline".)
☆23Apr 10, 2023Updated 3 years ago
Alternatives and similar repositories for 3DCellSeg
Users that are interested in 3DCellSeg are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Simulation platform of animal embryogenesis☆21Jun 19, 2022Updated 3 years ago
- A napari plugin for direct 3D cell segmentation -- taking you through training, inference, and review of masks☆120May 22, 2026Updated 3 weeks ago
- ☆17Jan 16, 2024Updated 2 years ago
- A JupyterBook site for napari workshop materials☆10Jul 11, 2022Updated 3 years ago
- MultiModal Big Image Data Sharing and Exploration☆20Jan 13, 2023Updated 3 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Interactive, particle-based physics, chemistry and biology modeling and simulation environment☆27Jul 14, 2025Updated 11 months ago
- Implementation of multiplex Leiden for analysis of spatial omics data☆21May 7, 2026Updated last month
- Evaluating the quality of a cell segmentation method without reference.☆13Jul 26, 2025Updated 10 months ago
- General Image Analysis of Nuclei-containing Images☆10Jul 11, 2025Updated 11 months ago
- CNN for segmenting vasculature☆17Apr 9, 2026Updated 2 months ago
- ☆14Jan 27, 2024Updated 2 years ago
- 3D Mitochondria Instance Segmentation with Spatio-Temporal Transformers☆14Apr 17, 2023Updated 3 years ago
- Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets☆26Feb 17, 2025Updated last year
- Workshop tutorials for Pyomo.DoE☆14Updated this week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- a 3D FPN backbone for object detection☆15Nov 7, 2018Updated 7 years ago
- DisPerSE: Automatic feature identification in 2D and 3D☆66Jun 26, 2023Updated 2 years ago
- ☆13Aug 30, 2024Updated last year
- ☆23Mar 26, 2021Updated 5 years 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 6 months ago
- Fast writing of numpy 3d-arrays into HDF5 Fiji/BigDataViewer files.☆34Aug 22, 2024Updated last year
- Rust extension module for FIJI-like colormapping and channel blending☆21Mar 31, 2026Updated 2 months ago
- Nanoscopy library for Python (NanoPyx, the successor to NanoJ) - focused on light microscopy and super-resolution imaging☆91Jun 8, 2026Updated last week
- ☆40Feb 25, 2026Updated 3 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Intensify3D is an image normalization tool for large scale fluorescent imaging. It corrects heterogeneities in the signal (defined by the…☆20Mar 14, 2021Updated 5 years ago
- czi reader from https://www.lfd.uci.edu/~gohlke/code/czifile.py.html☆14Oct 15, 2025Updated 8 months ago
- ☆33Jul 31, 2025Updated 10 months ago
- How to use Aligning Big Brains and Atlases with Python☆14May 3, 2023Updated 3 years ago
- Discrete Morse-based pipeline for neuron tracing on tracer injection and single-neuron data sets.☆13Jan 14, 2021Updated 5 years ago
- Instance segmentation via deep pixel embedding☆24Sep 4, 2020Updated 5 years ago
- Graph-based framework to manipulate and analyze cell lineages from cell tracking data☆24Updated this week
- A tool for cell instance aware segmentation in densely packed 3D volumetric images☆126Updated this week
- Registration to BrainGlobe atlases in napari using Elastix☆29Jun 2, 2026Updated 2 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- The computational platform u-signal3D defines a shape-invariant representation of the spatial scales of molecular organization at the cel…☆11May 29, 2026Updated 2 weeks ago
- 3d mask rcnn