A curated list of resources for 3D segmentation of neurites in EM images
☆56Mar 11, 2024Updated last year
Alternatives and similar repositories for Awesome-Neuron-Segmentation-in-EM-Images
Users that are interested in Awesome-Neuron-Segmentation-in-EM-Images are comparing it to the libraries listed below
Sorting:
- Open source volume electron microscopy (vEM) datasets for connectomics.☆15Nov 13, 2024Updated last year
- PyTorch Connectomics: segmentation toolbox for EM connectomics☆189Updated this week
- Official implementation, datasets and trained models of "SegNeuron: 3D Neuron Instance Segmentation in Any EM Volume with a Generalist Mo…☆20Jan 22, 2026Updated last month
- Utils and convenience functions for large-scale bio-image analysis.☆62Updated this week
- ☆17Feb 3, 2018Updated 8 years ago
- Accepted by ISBI 2022 (Oral)☆39Apr 9, 2022Updated 3 years ago
- 🌈☆67Oct 10, 2025Updated 4 months ago
- Tool for graph-based image segmentation and analysis☆22Nov 12, 2017Updated 8 years ago
- Semi-Supervised Neuron Segmentation via Reinforced Consistency Learning☆32May 28, 2022Updated 3 years ago
- Collection of connectomic papers and datasets.☆16Dec 25, 2023Updated 2 years ago
- Simple watershed and agglomeration library for affinity graphs.☆28Sep 18, 2025Updated 5 months ago
- Superhuman Accuracy on the SNEMI3D Connectomics Challenge☆14Feb 28, 2018Updated 8 years ago
- official implementation of the PatchPerPix instance segmentation method☆35Jun 27, 2023Updated 2 years ago
- Distributed segmentation for bio-image-analysis☆42Jan 18, 2026Updated last month
- Automatic segmentation of electron microscopy volumes☆78Jan 15, 2021Updated 5 years ago
- Biologically-Constrained Graphs for Global Connectomics Reconstruction☆11Feb 9, 2021Updated 5 years ago
- Official PyTorch code for Learning Large-Factor EM Image Super-Resolution with Generative Priors (GPEMSR, CVPR2024)☆15Aug 24, 2025Updated 6 months ago
- A python toolbox for locating and exporting brain regions from mouse brain images.☆12Oct 22, 2024Updated last year
- Web based Image Viewer developed @ Center for Advanced Imaging [University of Queensland]☆19May 18, 2023Updated 2 years ago
- A python package for the topological analysis of neurons.☆28Feb 26, 2025Updated last year
- Leonardo Citraro, Mateusz Kozinski, Pascal Fua, Towards Reliable Evaluation of Road Network Reconstructions, ECCV 2020☆11Aug 21, 2020Updated 5 years ago
- Deep Learning for EM Connectomics☆16Aug 18, 2022Updated 3 years ago
- Please go to https://github.com/CRBS/cdeep3m2 for most recent version☆59Feb 9, 2020Updated 6 years ago
- Automatic segmentation of electron microscopy volumes☆30Oct 23, 2012Updated 13 years ago
- Python scripts to read and write the CREMI hdf5 file format.☆39Mar 21, 2023Updated 2 years ago
- Domain Adaptive Mitochondria Segmentation via Enforcing Inter-Section Consistency☆16Jul 16, 2023Updated 2 years ago
- ☆15Dec 19, 2022Updated 3 years ago
- ☆16Nov 2, 2016Updated 9 years ago
- GTree is a brain-wide tool for neuron tracing.☆17Jan 13, 2021Updated 5 years ago
- Robust 3D Neuron Tracing / General 3D tree structure extraction in Python for 3D images powered by the Rivulet2 algorithm. Pain-free Inst…☆71Nov 16, 2022Updated 3 years ago
- Read and write Neuroglancer datasets programmatically.☆170Updated this week
- Official repository of MICCAI 2023 TDSC-ABUS challenge☆18Feb 2, 2025Updated last year
- ☆50Mar 2, 2026Updated last week
- StarDist plugin for napari☆39Aug 24, 2024Updated last year
- A nifty library for graph based image segmentation.☆47May 3, 2025Updated 10 months ago
- A self-supervised denoising algorithm.☆28Apr 6, 2024Updated last year
- Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.☆66Updated this week
- Data backend for fast proofreading of cell segmentations in connectomics datasets☆27Updated this week
- Cendoj Scrapping / API.☆11Aug 16, 2022Updated 3 years ago