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ome
ome-zarr

Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.

326K 238 68
thewtex
ngff-zarr

A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.

27K 69 18
ome-zarr-models
ome-zarr-models

A minimal Python package for reading, writing and validating OME-Zarr (meta)data

25K 37 17
pymmcore-plus
pymmcore-plus

Pure python/C++ micro-manager ecosystem

21K 50 25
fractal-analytics-platform
fractal-tasks-core

Main tasks for the Fractal analytics platform

11K 25 8
czbiohub-sf
iohub

Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata

10K 52 13
BioVisionCenter
ngio

ngio is a Python library to streamline OME-Zarr image analysis workflows.

8K 48 10
JaneliaSciComp
fileglancer

Browse, share, and publish OME-Zarr data

6K 25 4
pymmcore-plus
ome-writers

Unified API for streaming camera frames to either OME-TIFF or OME-Zarr format

5K 13 7
Euro-BioImaging
eubi-bridge

A Python-based tool for parallelized conversion of image datasets from various formats to OME-Zarr, with support for distributed processing and multi-dimensional concatenation.

3K 27 1
khanlab
zarrnii

Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations

2K 10 4
InsightSoftwareConsortium
itk-ioomezarrngff

ITK IO for images stored in OME-Zarr format.

2K 11 5
BioVisionCenter
ome-zarr-converters-tools

Tooling to build ome-zarr HCS plate converters

2K 6 5
fmicompbio
ez-zarr

Give easy, high-level access to ome-zarr filesets.

1K 22 2
fmi-faim
faim-ipa

Tools used at FMI-FAIM for Image Processing and Analysis.

1K 20 9
fractal-analytics-platform
fractal-converters-tools

Tooling to build ome-zarr HCS plate converters

514 6 5
leukemia-kispi
operetta-compose

Fractal tasks for the Opera/Operetta microscope and drug profiling

485 1 2
ome-zarr-models
ome-zarrpari

A plugin to load and use OME-Zarr data

470 3 1
thewtex
ngff-zarr-mcp

Model Context Protocol server for OME-Zarr image conversion

313 69 18
MaterialsPhysicsANU
anu-ctlab-qemscan-bse-to-zarr3

Convert QEMSCAN data to a Zarr V3 image pyramid with OME-Zarr metadata

225 0 0
khanlab
zarrnii-plugin-api

Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations

62 10 4
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