scalable minds @scalableminds
We build tools and services for large-scale neuroscience. @webknossos scalableminds.com Potsdam, Germany Joined February 2012-
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Storing, sharing, visualizing and processing large #volumeEM data can be challenging. Selecting the right file format is the basis for making things easier. Our article „Toward scalable reuse of vEM data: OME-Zarr to the rescue“ is out now: authors.elsevier.com/a/1gjIc,25QIop… 🧵1/5
Major publication by our friends at @mh_lab @MpiBrain! We used our Voxelytics software to help with fully automatic neuron segmentation, synapse detection, and connectome generation for 9 EM datasets from Mouse, Macaque, and Human. All datasets are available at @webknossos.
Major publication by our friends at @mh_lab @MpiBrain! We used our Voxelytics software to help with fully automatic neuron segmentation, synapse detection, and connectome generation for 9 EM datasets from Mouse, Macaque, and Human. All datasets are available at @webknossos.
@PyConDE was awsome! Big thanks to all the amazing organisers, volunteers & speakers! #PyConDE #PyDataBerlin
Going to present speedup steps that made data analysis code 700% faster, today at 2PM, #PyConDE 2022.pycon.de/program/VYS8XY Big thanks to my amazing colleagues at @scalableminds for the help and feedback preparing it 🙏
Find a soma, select the skeleton annotation tool, move between the slices of your data and place nodes until your neurite ends... Learn everything about skeleton annotations in webKnossos in @tom_herold 's blog post! medium.com/scalableminds/… #Connectome #BioImageAnalysis
There are now (at least) 4 companies offering neural circuit reconstruction as a service: Zetta AI, Ariadne AI, Scalable Minds, and Unidesign Solutions. I think all require you to bring your own EM data, but I'm sure we'll see sample prep and image acquisition as a service soon.
Read our blogpost about Machine learning workflows for large-scale reconstruction projects and discover how to make the most out of webKnossos for such use cases! medium.com/scalableminds/… #MachineLearning #Connectome
Do you need ground truth for your deep learning project? Check out our manual annotation service. Get high-quality annotations from our trained annotators for your image data. Learn more: webknossos.org/services/annot…
Read @normanrz 's blogpost to learn everything you need about meshes in webKnossos! medium.com/scalableminds/…
Render your meshes with your favorite tool. Choose a loaded mesh in the "Meshes" tab, then download it in STL. Import it into your rendering software (such as Blender or Amira) and let your graphic skills shine! Read more: medium.com/scalableminds/…
webKnossos now supports precomputed meshes. Click on a segment and instantly view the object in 3D. Try a demo: webknossos.org/datasets/scala…
We're introducing a dark mode to webKnossos! 🌙 Take it easy on your eyes when working those late hours or in dark environments or simply enjoy its aesthetic.
webKnossos now supports multisection tiffs and image sequences on upload. 🎉 Let us know what formats we should add next!
Read about new annotation and usability features in webKnossos in our latest blog post! medium.com/scalableminds/…
webknossos.org now features a site listing publications which used webKnossos in their work. Please contact us if we missed your publication! webknossos.org/references
We're introducing a pilot program for webKnossos. Receive up to 10TB of storage for free and help us shape the future of webKnossos. Apply now at webknossos.org/pilot-program
@webknossos @ScienceMagazine @boergens @mh_lab Big thanks to the super amazing team at @scalableminds for their help and support! :)
New publication with 10 novel datasets available on webknossos.org: "Postnatal connectomic development of inhibition in mouse barrel cortex" Published in @ScienceMagazine by @AnjaliGour18, @boergens, N Heike, Y Hua, P Laserstein, K Song, @mh_lab
New publication data on webknossos.org: "Electron Microscopic Reconstruction of Neural Circuitry in the Cochlea" (Cell Reports) by Hua et al. Published at @CellReports! Check it out now: wklink.org/9870
@albertcardona @dddavi @bpedigod @DanBumbarger @KordingLab @AdamMarblestone @TonyZador @bdanubius @neuro_data @ylecun @darbly @csdashm @marccobe @stardazed0 @blamlab @criticalneuro @as_bates @gsxej @alfairhall @JustusKebschull @catmaid We are hosting many datasets on webknossos.org openly available - can browse on most mobile phones. Eg webknossos.org/datasets/Demo_… #webknossos @scalableminds
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775 Followers 1K Following Visualize, share, segment, and annotate your large 3D images online. #opensource #volumeEM #bioimageanalysis #connectomics #zarr Bluesky: @webknossos.org
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