constantinpape / torch-em
Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.
☆94Updated last week
Alternatives and similar repositories for torch-em:
Users that are interested in torch-em are comparing it to the libraries listed below
- PyTorch implementation of 2D and 3D StarDist - Object Detection with Star-convex Shapes☆24Updated 2 years ago
- Segment Anything for Medical Imaging☆19Updated 2 weeks ago
- Codebase for "A Foundation Model for Cell Segmentation"☆84Updated last month
- Utils and convenience functions for large-scale bio-image analysis.☆54Updated last week
- Official implementation of "A novel deep learning-based 3D cell segmentation framework for future image-based disease detection". (Howeve…☆22Updated 2 years ago
- ☆65Updated last week
- Python package for deep learning based image to image transformation☆52Updated 11 months ago
- Easy Volumetric Segmentation with Deep Learning☆26Updated last week
- Open source Python library for building bioimage analysis pipelines☆161Updated this week
- ☆158Updated 2 weeks ago
- simple package for augmentation of n-dimensional arrays☆32Updated last year
- StarDist PyTorch☆47Updated 2 years ago
- Utilities for building and using the CEM dataset for unsupervised pre-training and downstream tasks.☆28Updated 2 years ago
- Unsupervised Instance Segmentation in Microscopy☆23Updated last year
- Code Implementation for EmbedSeg, an Instance Segmentation Method for Microscopy Images☆114Updated last year
- ☆70Updated last week
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆35Updated 2 years ago
- Course and exercises on deep learning for microscopy image analysis☆16Updated last year
- (NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality …☆151Updated last year
- A python algorithm for tracking cells in 3D time lapse images.☆59Updated last month
- Panoptic segmentation algorithms for 2D and 3D electron microscopy images☆2Updated 2 years ago
- Scalable Instance Segmentation using PyTorch & PyTorch Lightning.☆136Updated 2 weeks ago
- Segment Anything for Histopathology☆27Updated last month
- Masked Autoencoder Guided Segmentation at Pixel Resolution☆15Updated last year
- ☆231Updated last year
- QuPath extension for Segment Anything Model (SAM)☆107Updated last month
- 🔬🖥 Automated Blood Vasculature Analysis of 3D Light-Sheet Image Volumes☆47Updated 11 months ago
- Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images☆76Updated 2 weeks ago
- 🌈☆55Updated last month
- A deep learning model for single cell segmentation from microsopy images.☆35Updated this week