OME-XML (Open Microscopy Environment XML)

OME-XML is a vendor-neutral file format for biological image data, with an emphasis on metadata supporting light microscopy. It can be used as a data file format in its own right, or as a way of encoding metadata within a TIFF or BigTIFF file (for which purpose there is the OME-TIFF specification).

The standard is maintained by the Open Microscopy Environment Consortium, and was last updated in June 2012.

Summary Edit

Standard Website
Life Sciences
Animal pathology
Animal physiology
Cell Biology
Plant pathology
Plant physiology

Extensions Add

OME-TIFF (Open Microscopy Environment TIFF) Edit

A specification of how to embed OME-XML metadata within a TIFF or BigTIFF image file.

Tools Add

Bio-Formats Edit

Bio-Formats reads proprietary microscopy image data and metadata, and converts them to OME-TIFF, a combination of TIFF and OME-XML.

Fiji Edit

Fiji is an image processing package that supports the OME data model for images


Repository software for organising, viewing, analysing and sharing biological microscopy images. It supports proprietary file formats but normalises to OME-TIFF/OME-XML.

Use Cases Add

The Cell: An Image Library Edit

A resource database of images, videos, and animations of cells, capturing a wide diversity of organisms, cell types, and cellular processes. Its native metadata format for images is OME-XML.

JCB Data Viewer Edit

A repository for viewing and analysing multi-dimensional image data associated with articles published in The Journal of Cell Biology. Its native metadata format is OME-XML.