webKnossos

webKnossos is an open-source data sharing and annotation platform for multi-terabyte 2D and 3D electron-microscopy (EM) and light-microscopy (LM) datasets. Core features are fast 3D data streaming, link-sharing to specific locations in the data, and collaborative annotation features (volume labelling, line-segment annotation and more). Users may browse and view publicly-available data, while registered users can search, download and analyze database content.

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webKnossos: efficient online 3D data annotation for connectomics
PMID: 28604722

metasource: Fairsharing.org
version: None

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• webKnossos: efficient online 3D data annotation for connectomics PubMed citations: 29.

  29 articles citing: webKnossos: efficient online 3D data annotation for connectomics

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  Sample Preparation and Warping Accuracy for Correlative Multimodal Imaging in the Mouse Olfactory Bulb Using 2-Photon, Synchrotron X-Ray and Volume Electron Microscopy. PMID:35756997

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  Cross-modality synthesis of EM time series and live fluorescence imaging. PMID:35666127

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  Connectomics Annotation Metadata Standardization for Increased Accessibility and Queryability. PMID:35651719

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  Neuropathic pain caused by miswiring and abnormal end organ targeting. PMID:35614217

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  Functional and multiscale 3D structural investigation of brain tissue through correlative in vivo physiology, synchrotron microtomography and volume electron microscopy. PMID:35614048

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  Deep learning -- promises for 3D nuclear imaging: a guide for biologists. PMID:35420128

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  The connectome from the cerebral cortex to the viscera using viral transneuronal tracers. PMID:34956443

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  Aligned Organization of Synapses and Mitochondria in Auditory Hair Cells. PMID:34837647

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  Advanced Technologies for Local Neural Circuits in the Cerebral Cortex. PMID:34803616

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  A specialized spinal circuit for command amplification and directionality during escape behavior. PMID:34663699

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  Integration of signals from different cortical areas in higher order thalamic neurons. PMID:34282018

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  Methods for analyzing neuronal structure and activity in Caenorhabditis elegans. PMID:34151952

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  Segmentor: a tool for manual refinement of 3D microscopy annotations. PMID:34022787

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  Cellular connectomes as arbiters of local circuit models in the cerebral cortex. PMID:33986261

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  Cytoarchitecture and innervation of the mouse cochlear amplifier revealed by large-scale volume electron microscopy. PMID:33719053

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  webTDat: A Web-Based, Real-Time, 3D Visualization Framework for Mesoscopic Whole-Brain Images. PMID:33519408

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  Statistical Laws of Protein Motion in Neuronal Dendritic Trees. PMID:33207192

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  Massive Data Management and Sharing Module for Connectome Reconstruction. PMID:32455914

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  Cell-type specific innervation of cortical pyramidal cells at their apical dendrites. PMID:32108571

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  UNI-EM: An Environment for Deep Neural Network-Based Automated Segmentation of Neuronal Electron Microscopic Images. PMID:31857624

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  A Pipeline for Volume Electron Microscopy of the Caenorhabditis elegans Nervous System. PMID:30524248

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  Full reconstruction of large lobula plate tangential cells in Drosophila from a 3D EM dataset. PMID:30485333

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  NeuTu: Software for Collaborative, Large-Scale, Segmentation-Based Connectome Reconstruction. PMID:30483068

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  Fully-Automatic Synapse Prediction and Validation on a Large Data Set. PMID:30420797

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  Methods for Mapping Neuronal Activity to Synaptic Connectivity: Lessons From Larval Zebrafish. PMID:30410437

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  VAST (Volume Annotation and Segmentation Tool): Efficient Manual and Semi-Automatic Labeling of Large 3D Image Stacks. PMID:30386216

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  FluoEM, virtual labeling of axons in three-dimensional electron microscopy data for long-range connectomics. PMID:30106377

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  Architecture of a mammalian glomerular domain revealed by novel volume electroporation using nanoengineered microelectrodes. PMID:29330458

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  SynEM, automated synapse detection for connectomics. PMID:28708060

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electron microscopy

metasource: Fairsharing.org
version: None

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light microscopy

metasource: Fairsharing.org
version: None

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electron microscopy light microscopy