Managing Datasets¶

Working with 3D (and 2D) image datasets is at the heart of WEBKNOSSOS.

Import datasets by uploading them directly via the web UI, streaming them from a remote server/the cloud.
Configure the dataset default settings and permissions to your specification.
Share your datasets with the public or with selected users.

Read the section on file and data formats if you are interested in the technical background and concepts behind WEBKNOSSOS datasets.

Watch this tutorial to get started:

Example Datasets¶

For convenience and testing, we provide a list of sample datasets for WEBKNOSSOS:

Sample_e2006_wkw
Raw SBEM data and segmentation (sample cutout, 120MB).
https://static.webknossos.org/data/e2006_wkw.zip
Connectomic reconstruction of the inner plexiform layer in the mouse retina.
M Helmstaedter, KL Briggman, S Turaga, V Jain, HS Seung, W Denk.
Nature. 08 August 2013. https://doi.org/10.1038/nature12346
Sample_FD0144_wkw
Raw SBEM data and segmentation (sample cutout, 316 MB).
https://static.webknossos.org/data/FD0144_wkw.zip
FluoEM, virtual labeling of axons in three-dimensional electron microscopy data for long-range connectomics.
F Drawitsch, A Karimi, KM Boergens, M Helmstaedter.
eLife. 14 August 2018. https://doi.org/10.7554/eLife.38976
Sample_MPRAGE_250um
MRI data (250 MB).
https://static.webknossos.org/data/MPRAGE_250um.zip
T1-weighted in vivo human whole brain MRI dataset with an ultra-fine isotropic resolution of 250 μm. F Lüsebrink, A Sciarra, H Mattern, R Yakupov, O Speck.
Scientific Data. 14 March 2017. https://doi.org/10.1038/sdata.2017.32