Zarr v3 support
Accessing dataset in the Zarr v3 format including sharding.
Multi-modal images and analysis
Visualizing layers of different modalities (e.g. light microscopy, µCT, EM) in a single view.Map all modalities in a single coordinate space with affine and non-linear transformations.Create transformations with rotate, scale, and translate tools.
Segment statistics
Calculating and showing statistics about imported and created segmentations.Statistics will include information per segment such as volume, surface area, centroids, bounding boxes.
Time series
Support for importing time series data into webKnossos (5D = 3D + channels + time).Support for selecting time points via a slider in the UI.
Better fluorescence support
Automatic contrast settings.Maximum intensity projection in 3D viewport.
Collaborative proof-reading
Task system for proof-reading.Materialization of proof-read segments.
Single-tile stack alignment
Automatically align datasets upon upload to WEBKNOSSOS.Please contact us for multi-tile alignments.
AI-based automated segmentations
Full training loop with creating annotations in WEBKNOSSOS, training a model as a background process and performing inference of a dataset.One-button solutions with pre-trained models for several segmentation tasks in EM including neurons, synapses, nuclei, mitochondria.
Previous work
AI-based quick select
Draw a rectangle around an object and fill it automatically with MetaAI's Segment Anything model.
Segmentation proof-reading
Fix split and merge errors by editing the underlying supervoxel graph of a segmentation.
Works best with segmentations from Voxelytics.
Single sign-on integration
OpenID Connect (OIDC) authentication support.
Quick select
Draw a rectangle around an object and fill it automatically with a floodfill algorithm.
Dataset management
Organize datasets into folders, attach permissions to folders.
Add metadata to datasets, folders and search by metadata.
Zarr streaming
Stream datasets and annotations from webKnossos to other tools via the Zarr file format
Import Zarr and N5
Import Zarr and N5 datasets. Use the OME-NGFF format to define downsampling pyramids and metadata.
64-Bit segmentations
Support for 64-Bit segmentations.
Segment colors
Select custom colors for segments.
Shared annotations
Better collaboration by enabling write access to a shared annotation within a team of annotators.
Volume interpolation
Create a volume annotation on a section, skip a few sections, draw again and interpolate in between.
Connectome Viewer
Visualize agglomerate skeletons and synapses. List synaptic connections of neuron and jump from one neuron to the next.
Python library
Create, upload and access datasets and annotations from Python.