Python code that I used in my blog posts on the Zarr file format.
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Updated
Oct 24, 2022 - Python
Python code that I used in my blog posts on the Zarr file format.
Run encapsulated docker containers with BioFormats2Raw in the Amazon Web Services infrastructure.
Course materials for the practical on the Defragmentation Training School 2 - Porto, 8-12 May 2023
Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations
A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.
Large-scale cell segmentation with cellpose.
ITK IO for images stored in OME-Zarr format.
Converter from the Lif files (Leica Microscope) to OME-Zarr format.
A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, in a parallelised manner.
Fractal tasks for the Opera/Operetta microscope and drug profiling
Main tasks for the Fractal analytics platform
Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata
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