Ome Zarr Python Packages

ome-zarr

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

ome-zarr-models

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

ngff-zarr

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

pymmcore-plus

Pure python/C++ micro-manager ecosystem

ome-writers

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

ngio

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

iohub

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

fractal-tasks-core

Main tasks for the Fractal analytics platform

fileglancer

Browse, share, and publish OME-Zarr data

multiview-stitcher

A Python toolbox for aligning / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.

ome-zarr-io

Write, read and validate OME-Zarr 0.5 images and high-content screen plates.

itk-ioomezarrngff

ITK IO for images stored in OME-Zarr format.

scigantic-bil

Search the Brain Image Library and read its light-sheet, fMOST and STPT volumes over HTTP without downloading them

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.

dyna-zarr

A lightweight library for lazy operations on Zarr arrays without task graph overhead

ngff-zarr-mcp

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

zarrnii

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

faim-ipa

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

ome-zarr-converters-tools

Tooling to build ome-zarr plate converters

ez-zarr

GIve easy, high-level access to ome-zarr fileset

ome-zarr-pyramid

Read, write and downscale OME-Zarr (NGFF) pyramids with a lazy, memory-bound Pyramid object

operetta-compose

Fractal tasks for the Opera/Operetta microscope and drug profiling

fractal-converters-tools

Tooling to build ome-zarr plate converters

chunkmirage

Serve virtual chunked arrays (Zarr, N5, precomputed) over HTTP: each chunk computed on request by a pipeline you can edit live.