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Ome Zarr Converter Python Packages

Python packages with the GitHub topic ome-zarr-converter. Sorted by relevance, with stars and monthly downloads.
spatial-image
multiscale-spatial-image

Generate a multiscale, chunked, multi-dimensional spatial image data structure that can serialized to OME-NGFF.

89K 55 9
thewtex
ngff-zarr

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

24K 70 18
scalableminds
cluster-tools

Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.

17K 28 14
scalableminds
webknossos

Python API and CLI tools for working with WEBKNOSSOS datasets, annotations and server interactions. Includes converter to OME-Zarr.

13K 28 14
czbiohub-sf
iohub

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

11K 52 13
fractal-analytics-platform
fractal-tasks-core

Main tasks for the Fractal analytics platform

8K 25 8
BioVisionCenter
ome-zarr-converters-tools

Tooling to build ome-zarr plate converters

2K 6 5
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.

1K 27 1
InsightSoftwareConsortium
itk-ioomezarrngff

ITK IO for images stored in OME-Zarr format.

1K 11 5
ome
omero-cli-zarr

Plugin for exporting images in zarr format.

1K 20 11
fmi-faim
faim-ipa

A collection of Image Processing and Analysis (IPA) functions used at the Facility for Advanced Imaging and Microscopy (FAIM)

1K 20 9
spatial-image
spatial-image-multiscale

spatial-image-multiscale

703 55 9
FrancisCrickInstitute
omeslicc

Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)

484 7 1
fractal-analytics-platform
fractal-converters-tools

Tooling to build ome-zarr HCS plate converters

435 6 5
leukemia-kispi
operetta-compose

Fractal tasks for the Opera/Operetta microscope and drug response profiling

382 1 2
thewtex
ngff-zarr-mcp

Model Context Protocol server for OME-Zarr image conversion

318 70 18
ome
ome2024-ngff-challenge

Project planning and material repository for the 2024 challenge to generate 1 PB of OME-Zarr data

226 21 20
BodenmillerGroup
mcd2zarr

Command line tool to convert MCD files to Zarr

68 2 1
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