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You will receive monthly insights about the latest tools and techniques for biological image analysis, updates on webKnossos’ new features and links to recent scientific discoveries.
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
webKnossos supports almost all our connectomics work in the retina. It's the best web-based tool out there for integrated team-based annotation, proofreading, display, and output of serial EM data. The toolset is diverse, powerful, and intuitive. The functionality and ease of use just keep getting better. It has been a pleasure to work with the responsive and science-friendly folks at scalable minds.
We are working on systems neuroscience in the mouse olfactory bulb. webKnossos is very useful for safely storing large datasets and managing access across multiple users. It makes it simpler sharing insights with collaborators - by facilitating operations such as looking at the very same data or sharing annotations.
Automated Neuron Reconstruction
In the following blog post, I will talk more about the steps required for large scale 3D serial-blockface electron microscopy (SBEM) neuron reconstruction.
Our goal is to create a fully automated neuron reconstruction and Connectome matrix that allows for meaningful biological analyses. The reconstruction is done using our machine-learning neuron reconstruction software Voxelytics...
Introducing webKnossos’ nuclei classifier for Volume EM
When working in nanoscale neuroscience, you are almost always confronted with the difficulty of biological image analysis for large-scale datasets. In order to make scientific discoveries, most of the time you will need to annotate your data either manually or with the help of a Machine Learning system. webKnossos is the perfect tool to annotate large-scale datasets collaboratively. We decided to go one step further and implement the first ...
ML workflows for large-scale reconstruction projects
Reconstructing biological objects (e.g. neurons) from tera- or peta-scale image datasets is a challenging task. webKnossos has some helpful features to assist with large-scale collaborative reconstruction projects.
webKnossos is a web-based platform for visualizing, annotating and sharing large 3D image datasets. One of the most popular use cases ...