Lists (6)
BioMed-Foundation
Biotools
CS-learning
This is a list about CS-coursesEM-Segmentation
This is a list about automatic EM segmentationEM-tools
This is a list about large-scale EM dataset processing toolsVision
This is a list about vision-simulation toolsStars
Nanoscopy library for Python (NanoPyx, the successor to NanoJ) - focused on light microscopy and super-resolution imaging
Masked Autoencoder Guided Segmentation at Pixel Resolution
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💥 Interactive and colorful 🎨 graph theory tutorials made using d3.js ⚡
An introduction to bioimage analysis - http://bioimagebook.github.io
A framework for easy application of established machine learning techniques on large, multi-dimensional images.
Python SDK for interacting with the BossDB REST API
A Python implementation of Optimization-based PIPP, a method for retinal mosaic simulation.
Utils and convenience functions for large-scale bio-image analysis.
Distributed segmentation for bio-image-analysis
A collection of resources on applications of multi-modal learning in medical imaging.
A PyTorch-based library for working with 3D and 2D convolutional neural networks, with focus on semantic segmentation of volumetric biomedical image data
Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.
Threaded Python and CLI client library for AWS S3, Google Cloud Storage (GCS), in-memory, and the local filesystem.
Asynchronous serverless task queue with timed leasing of tasks. Threaded implementations for SQS and local filesystem.
Flood-Filling Networks for instance segmentation in 3d volumes.
NEURD: A mesh decomposition framework for automated proofreading and morphological analysis of neuronal EM reconstructions
Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.
ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy
Big FeaTure Aligner: a scalable solution for feature alignment
A set of tools to assist in aligning (registering) large numbers of EM images into a coherent image volume in two and three dimensions.
If you build software, keep a changelog.
PyTorch Connectomics: segmentation toolbox for EM connectomics