constantinpape / torch-emLinks
Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.
☆109Updated last week
Alternatives and similar repositories for torch-em
Users that are interested in torch-em are comparing it to the libraries listed below
Sorting:
- Segment Anything for Medical Imaging☆26Updated last week
- PyTorch implementation of 2D and 3D StarDist - Object Detection with Star-convex Shapes☆25Updated 2 years ago
- Official implementation of "A novel deep learning-based 3D cell segmentation framework for future image-based disease detection". (Howeve…☆22Updated 2 years ago
- Codebase for "A Foundation Model for Cell Segmentation"☆110Updated 2 weeks ago
- ☆100Updated 3 weeks ago
- Utils and convenience functions for large-scale bio-image analysis.☆58Updated 2 months ago
- ☆240Updated last year
- Unsupervised Instance Segmentation in Microscopy☆24Updated last year
- Repository of scripts to facilitate participation in CellMap's segmentation challenge. This includes downloading data, simple setups for …☆39Updated last month
- Code Implementation for EmbedSeg, an Instance Segmentation Method for Microscopy Images☆121Updated last year
- 🔬🖥 Automated Blood Vasculature Analysis of 3D Light-Sheet Image Volumes☆52Updated last year
- Scalable Instance Segmentation using PyTorch & PyTorch Lightning.☆145Updated 6 months ago
- Easy Volumetric Segmentation with Deep Learning☆28Updated last week
- Python package for deep learning based image to image transformation☆53Updated 2 months ago
- Transformer-based cell tracking for live-cell microscopy☆104Updated 2 weeks ago
- StarDist PyTorch☆47Updated 2 years ago
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆35Updated 3 years ago
- simple package for augmentation of n-dimensional arrays☆33Updated 2 years ago
- QuPath extension for Segment Anything Model (SAM)☆122Updated 3 months ago
- ☆92Updated 4 months ago
- NuSeT: A Deep Learning Tool for Reliably Separating and Analyzing Crowded Cells☆20Updated 5 years ago
- Utilities for building and using the CEM dataset for unsupervised pre-training and downstream tasks.☆29Updated 2 years ago
- Joint training of denoising and segmentation.☆75Updated 2 years ago
- ☆188Updated last week
- A python algorithm for tracking cells in 3D time lapse images.☆64Updated last month
- 🌈☆66Updated 2 weeks ago
- Experimental code and examples for: Automated analysis of whole brain vasculature using machine learning☆74Updated 4 years ago
- (NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality …☆153Updated last year
- Open source Python library for building bioimage analysis pipelines☆184Updated last week
- Convolutional Neural Network-Based Instance Segmentation Algorithm to Acquire Quantitative Criteria of Early Mouse Development☆32Updated 2 years ago