Scalable from giga- to petavoxel datasets
webKnossos scales seamlessly from smaller to the largest image datasets available. Support for 2D and 3D datasets with multiple channels.
Unique annotation modes for faster results
The unique “flight mode” enables very fast skeleton annotation of neurites. Efficient volume annotation tools accelerate training data generation and proof-reading.
Fast browsing no matter where you are
webKnossos storage and streaming technology provides fast browsing speeds to your work computer, home-office laptop and tablet on-the-go.
Your datasets are only accessible by you and your chosen collaborators. Once you are ready, publish them with a click of a button.
Postnatal connectomic development of inhibition in mouse barrel cortex
Anjali Gour, Kevin M. Boergens, Natalie Heike, Yunfeng Hua, Philip Laserstein, Kun Song, Moritz Helmstaedter
Cell-type specific innervation of cortical pyramidal cells at their apical tufts
Ali Karimi, Jan Odenthal, Florian Drawitsch, Kevin M. Boergens, Moritz Helmstaedter
Dense connectomic reconstruction in layer 4 of the somatosensory cortex
Alessandro Motta, Manuel Berning, Kevin M Boergens, Benedikt Staffler, Marcel Beining, Sahil Loomba, Philipp Hennig, Heiko Wissler, Moritz Helmstaedter
Annotation techniques for large-scale volume EM datasets
Generating annotations from volumetric electron microscopic (EM) image datasets is important for the work of many neuroscientists. As these EM datasets massively grow in size to many terabytes, smart tools as well as collaboration workflows are required to obtain high-quality annotations. The resulting annotations can be directly used for visualization or quantification purposes or indirectly, by training or evaluating a Machine Learning (ML) system...
New annotation and usability features in webKnossos
Today I would like to give you an overview of the many new features and UX improvements that we added to webKnossos over the last half-year.
At scalable minds, webKnossos is our primary tool for viewing the results of our automated neuron reconstructions, collaborate on training data annotation, and share the results with colleagues. Many of the new features are therefore inspired by our work in Connectomics and biomedical image reconstruction...
Cross-Dataset Segmentation Models
At scalable minds we work a lot with research labs in the Connectomics field and beyond to help them with automated image analysis and EM dataset reconstructions. We use state-of-the-art machine learning algorithms for automated dense reconstructions of neuron connections in brain tissue. Our alignment and segmentation tools are optimized to handle the terabyte-scale 3D EM datasets...
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