Read and write TIFF files.

Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.

SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.

An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.

A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, in a parallelised manner.

Tools to handle IMC data

I/O operations for OME-TIFF files in Julia

HistoJS: Web-Based Analytical Tool for Multiplexed Images. Limited Github Online Demo 👇

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

OME Files is a C++ library for reading and writing data using the open and standard OME-TIFF file format using the OME data model

pipeline that converts Deepcell generated instance segmentation masks of nuclei from an ome-tiff to Cell Objects with auto-generated cytoplasms in QuPath

Advanced methods in bioimage analysis

C# helper class for serializing image metadata into Open Microscopy's OME-XML Tiff format.

Feature based image registration for immunofluorescence images

Image Viewer for Digital Pathology at any scale. Part of the cytario platform.

Supplementary information associated with Besson et al. (2019) ECDP 2019

Python tool to parse Tomocube TCF files to OME-TIFF format

"Towards open and standardised imaging data" 28 May 2025

Multichannel single-cell immunofluorescence analysis with brightfield-refined cell boundaries, nuclear/cytoplasmic quantification, and per-cell co-localization metrics

Fast, cross-platform CLI toolkit for whole-slide imaging (WSI) in digital pathology — inspect, convert, downsample & extract regions from SVS, DICOM-WSI, BIF, NDPI, Philips-TIFF and more. DeepZoom (DZI/SZI) + Cloud-Optimized COG-WSI output. No OpenSlide dependency.