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.

webknossos

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

cluster-tools

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.

faim-ipa

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

omero-cli-zarr

Plugin for exporting images in zarr format.

ngff-zarr-mcp

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

operetta-compose

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

spatial-image-multiscale

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

fractal-converters-tools

Tooling to build ome-zarr plate converters

omeslicc

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

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