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10 repositories

empanada-napari-docs
Public
Documentation for empanada-napari (https://github.com/volume-em/empanada-napari)
BSD 3-Clause "New" or "Revised" License
•1•1•0•0•Updated Mar 31, 2026Mar 31, 2026
empanada-napari
Public
Panoptic segmentation algorithms for 2D and 3D electron microscopy in napari
deep-learning electron-microscopy 3d
deep-learning electron-microscopy 3d 2d instance-segmentation mitochondria panoptic-segmentation napari-plugin
Python
•
BSD 3-Clause "New" or "Revised" License
•14•33•13•6•Updated Mar 24, 2026Mar 24, 2026
BSS-Tracker
Public
This is a project tracking tool that connects biological specimen entries with a project's investigator, biological sample and sample prep notes.
JavaScript
•
Other
•0•0•0•0•Updated Mar 18, 2024Mar 18, 2024
empanada
Public
Panoptic segmentation algorithms for 2D and 3D electron microscopy images
deep-learning pytorch segmentation
deep-learning pytorch segmentation electron-microscopy semantic-segmentation instance-segmentation panoptic-segmentation
Python
•
GNU General Public License v2.0
•1•2•5•2•Updated Feb 25, 2023Feb 25, 2023
cem-dataset
Public
Utilities for building and using the CEM dataset for unsupervised pre-training and downstream tasks.
benchmarking deep-learning pytorch
benchmarking deep-learning pytorch pretrained-models electron-microscopy unsupervised-learning weights semantic-segmentation
Jupyter Notebook
•
BSD 3-Clause "New" or "Revised" License
•1•29•0•1•Updated Dec 30, 2022Dec 30, 2022
zooniverse-tools
Public
Scripts and notebooks for data wrangling from Zooniverse.
Python
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Dec 13, 2022Dec 13, 2022
volume-em.github.io
Public
Projects developed for the volume EM community
0•2•0•0•Updated Oct 7, 2022Oct 7, 2022
scikit-image
Public
Image processing in Python
Python
•
Other
•2.4k•0•0•0•Updated Jun 3, 2022Jun 3, 2022
cell-membrane-virus-interaction
Public
Tools for measuring characteristics of virus-cell interactions from isotropic volume EM data.
Python
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Oct 21, 2021Oct 21, 2021
bootstrap2.5d
Public
Code for the paper: Enforcing Prediction Consistency Across Orthogonal Planes Significantly Improves Segmentation of FIB-SEM Image Volumes by 2D Neural Networks…
Python
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Nov 24, 2020Nov 24, 2020

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10 repositories

empanada-napari-docs

empanada-napari

BSS-Tracker

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volume-em.github.io

scikit-image

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10 repositories