Ngff Python Packages

ome-zarr

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

multiscale-spatial-image

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

ome-zarr-models

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

ome-writers

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

fileglancer

Browse, share, and publish OME-Zarr data

napari-ome-zarr

A napari plugin for zarr backed OME-NGFF images

biomero-importer

System that allows automatic importing of datasets via local network

ome-zarr-io

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

biomero-shallower

Python library and CPU-only container for shallow OME-Zarr normalization in BIOMERO. Reuses verified canonical pixels while retaining new and changed image and label data, reducing storage and result transfers. Shared by BIOMERO.importer and remote Slurm workflows; no OMERO connection or credentials required.

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.

omero-cli-zarr

Plugin for exporting images in zarr format.

spatial-image-multiscale

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

ome-zarr-pyramid

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

pyrametric

Lazy, memory-bounded connected-components labeling and per-object measurement for OME-Zarr pyramids

omero-adi

System that allows automatic importing of datasets via local network