@thewtex

🧑‍🔬 Research Software Engineer ❤️‍🔥 Open Science Champion 🕸️ ITK / SciPy / DeSci / Web3 / Wasm 🫶 Bluegrass lover / Catholic 😊 Husband / Father

 North Carolina, USA
mmmccormick.com
Joined August 2009
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104Media
📷 **Join the 3rd Get Your Brain Together Hackathon!** Our focus: advancing **OME-Zarr spatial transformations**! More: insightsoftwareconsortium.gi…
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Insight Toolkit (ITK) 5.4 Release Candidate 4 ALL THE DICOMs is available for testing! 🎉 github.com/InsightSoftwareCo…
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#ITK 5.4 RC 2 is out, with Web3 testing data support #Sustainability Built with @IPFS @Web3Storage @pinatacloud @datalad @ImJoyTeam @fleekxyz #cmake
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github.com/InsightSoftwareCo…

Release ITK 5.4 Release Candidate 2: Web3 Testing Data · InsightSoftwareConsortium/ITK

We are happy to announce the Insight Toolkit (ITK) 5.4 Release Candidate 2 is available for testing! 🎉 ITK is an open-source, cross-platform toolkit for N-dimensional scientific image processing,...

github.com
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Join us at the ONLINE Insight Toolkit (ITK) Hackathon on November 8! 👾 Meet the devs, collaborate with the scientific image-processing community, and take your first steps with the ITK and open-source! 🧠 More Info: ow.ly/4LgF50Q0OnV Sign-up!: ow.ly/vaAY50Q0OnX
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On sustainable scientific testing data with #web3 technologies at the @NumFOCUS Summit docs.google.com/presentation… #ipfs #openscience #desci #sustainability #cxx #python #javascript
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Out now! "#OMEZarr: a #CloudOptimized #BioImaging #FileFormat with Int'l #Community Support" 😍 Huge thanks to the 68 co-authors, across 32 institutions (see the quoted tweet) 🙌 If you use #OMEZarr & weren't involved, let's start the next report! 📝 doi.org/10.1007/s00418-023-0…

OME-Zarr: a cloud-optimized bioimaging file format with international community support

Histochemistry and Cell Biology - A growing community is constructing a next-generation file format (NGFF) for bioimaging to overcome problems of scalability and heterogeneity. Organized by the...

link.springer.com
Josh Moore@notjustmoore8 May 2023
#OMEZARR @biorxivpreprint v4 now available with newly added teams incl. @CiminiLab @fabian_theis @imweio @loicaroyer @ngehlenborg @OliverStegle @sonamix & an apparently elusive Nathan Hotaling ❤️Love to see the growing list of resources, e.g. ngff.openmicroscopy.org/data…
Screenshot of https://ngff.openmicroscopy.org/data/index.html showing a table of "Data Resources" along with where the catalog is hosted, how many Zarr filesets are published, and their estimated size in GB or TB.

ALT Screenshot of https://ngff.openmicroscopy.org/data/index.html showing a table of "Data Resources" along with where the catalog is hosted, how many Zarr filesets are published, and their estimated size in GB or TB.

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1/9 Excited to share #SpatiaData, a framework for representing spatially-resolved omics technologies. Great colab w/ @g_palla1 @ky396 @ivirshup @HeidariElyas @TreisTim Marcella @rahulbshrestha @harald_voeh @wolfgangkhuber @MoritzGerstung @notjustmoore @fabian_theis @OliverStegle
The text “SpatialData Framework” along with the SpatialData logo, showing three stacked layers in perspective, at the top a yellow tabular structure, in the middle a dark blue layer with green dots (i.e. cells), and at the bottom a lighter blue layer with a black grid representing a raster image.

ALT The text “SpatialData Framework” along with the SpatialData logo, showing three stacked layers in perspective, at the top a yellow tabular structure, in the middle a dark blue layer with green dots (i.e. cells), and at the bottom a lighter blue layer with a black grid representing a raster image.

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Want to learn the fundamentals of Zarr and OME-Zarr NGFF? Take these new interactive tutorials, operating on whole-brain lightsheet volumes from the Allen Insitute for Neural Dynamics github.com/InsightSoftwareCo… #zarr #ngff @dyfbrian @zarr_dev @openmicroscopy
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New post on intuitive visualizations and cloud resources for medical imaging research with #itkwidgets on @CancerIDC kitware.com/itkwidgets-and-i…
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window/level interaction mode 🪟🎚️
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See those AI labels in 3D
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Next Scikit-build Community Meeting tomorrow (Friday may 19) at 12:00 PM EDT meet.google.com/dvx-jkai-xhq - we'll be covering an analysis of a few hundred projects using scikit-build, the setuptools replacement work, and more!
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New post on Scientific Software Sustainability in Action with the @UUtah Cleaver multi-material mesher and @thehiddenbrain kitware.com/sustainability-i…
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Built in the context of discussions on Scientific Software Process for the Web doi.org/10.5281/zenodo.79391…
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and Best Practices for Communication of Project, Resources, Governance, and Culture doi.org/10.5281/zenodo.79392…
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Join us at the second Get Your Brain Together neuroimage registration hackathon 🧠This community collaboration aims to create reproducible, open source resources that enable discovery of the structure and function of brains. insightsoftwareconsortium.gi…
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The Get Your Brain Together hackathons bring together neuroimage data generators, image registration researchers, and neurodata compute infrastructure providers for a hands-on, collaborative event. 🤝
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This hackathon is hosted by the @AllenInstitute with sponsorship from @NumFOCUS @BioTranslucence and support from @NIMHgov @Kitware
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Our photo submission, Arteries - A Brain Imaged with Heart!, has been selected for the public voting round for the 2023 BRAIN Initiative: Show Us Your BRAINs! Photo & Video Contest! @USBrainAlliance Browse submissions and vote for your favorites below. braininitiative.nih.gov/cont…
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