Ome Zarr Converter Python Packages

multiscale-spatial-image

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

ngff-zarr

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

cluster-tools

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

webknossos

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

iohub

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

fractal-tasks-core

Main tasks for the Fractal analytics platform

ome-zarr-converters-tools

Tooling to build ome-zarr plate converters

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.

itk-ioomezarrngff

ITK IO for images stored in OME-Zarr format.

omero-cli-zarr

Plugin for exporting images in zarr format.

faim-ipa

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

spatial-image-multiscale

spatial-image-multiscale

omeslicc

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

fractal-converters-tools

Tooling to build ome-zarr HCS plate converters

operetta-compose

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

ngff-zarr-mcp

Model Context Protocol server for OME-Zarr image conversion

ome2024-ngff-challenge

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

mcd2zarr

Command line tool to convert MCD files to Zarr