ome-zarr
There are 25 repositories under ome-zarr topic.
ome/ome-zarr-py
Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
grimbough/Rarr
A simple native R reader for Zarr Arrays
pymmcore-plus/pymmcore-plus
Pure python/C++ micro-manager ecosystem
czbiohub-sf/iohub
Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata
thewtex/ngff-zarr
A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.
Euro-BioImaging/BatchConvert
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.
LDeakin/zarrs_tools
Various tools for creating and manipulating Zarr v3 data with the zarrs rust crate
fractal-analytics-platform/fractal-tasks-core
Main tasks for the Fractal analytics platform
BioImageTools/ome-zarr-models-py
Prototype for a common minimal-dependencies Python implementation of the NGFF data model
fmicompbio/ez_zarr
GIve easy, high-level access to ome-zarr fileset
JaneliaSciComp/zarrcade
Create web-based OME-Zarr galleries
InsightSoftwareConsortium/ITKIOOMEZarrNGFF
ITK IO for images stored in OME-Zarr format.
fmi-faim/faim-ipa
A collection of Image Processing and Analysis (IPA) functions used at the Facility for Advanced Imaging and Microscopy (FAIM)
fractal-analytics-platform/ngio
NGIO is a Python library to streamline OME-Zarr image analysis workflows.
ome/EMBO-Practical-Course-2023
Advanced methods in bioimage analysis
AllenNeuralDynamics/aind-large-scale-cellpose
Large-scale cell segmentation with cellpose.
ome/ome-ngff-validator
Web page for validating OME-NGFF files
DistributedScience/Distributed-OMEZarrCreator
Run encapsulated docker containers with BioFormats2Raw in the Amazon Web Services infrastructure.
Euro-BioImaging/OME_Zarr_Tools
Course materials for the practical on the Defragmentation Training School 2 - Porto, 8-12 May 2023
khanlab/zarrnii
Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations
ome/ome-ngff-tools
Document available viewers and other tools for the OME-NGFF image format
JaneliaSciComp/n5-inspector
Inspector for NGFF-style containers supported by the N5 API (N5, HDF5, OME-Zarr)
leukemia-kispi/operetta-compose
Fractal tasks for the Opera/Operetta microscope and drug profiling
FabrizioMusacchio/ZARR_tests
Python code that I used in my blog posts on the Zarr file format.
fractal-analytics-platform/fractal-lif-converters
Converter from the Lif files (Leica Microscope) to OME-Zarr format.