10.60964/rnd-30fh-4k59Micklem BRB RMicklemhttps://orcid.org/0000-0002-0315-6022Doig NMNatalie MDoighttps://orcid.org/0000-0001-6821-0264HitachiTEMTIFF_to_OME-TIFFUniversity of Oxford20262026enThis tool converts Hitachi TEM .tif images and matching .txt metadata files into OME-TIFF format. It requires Java (JRE 17 or above). This application includes the Bio-Formats library for writing OME-TIFF. The releases and source code are available from GitHub. The release downloads are in the 'Assets' sections at the bottom of the pages.The Windows release is an .exe file that is moved into the same directory as the images to be converted.The cross-platform release is a .jar file that is also run from the same directory as the images to be converted.Metadata MappingStandard OME fields:- PixelSize → Pixels.PhysicalSizeX/Y- StagePositionX/Y/Z → Plane.PositionX/Y/Z- Magnification → Objective.NominalMagnification- Date and Time → Image.AcquisitionDateAll other metadata is stored as structured annotations.Notes- Pixel dimensions are converted from nanometers (Hitachi metadata) to micrometers (OME standard)- Existing .ome.tif files are not overwritten- Some TEM-specific fields are not defined in the OME standard and are stored as annotationsCompatibilityIt has been tested on images created by Hitachi TEM system, Model HT7800, System Software Version 1.20, and AppCameraControl_HT7800 version 1.17.03.59.DisclaimerThis software is not affiliated with, endorsed by, or supported by Hitachi High-Technologies or any of its affiliates.The use of the name "Hitachi" refers solely to the format of the input data and does not imply any association with the company.Medical Research Council, UKRIUKRI/MR/B000936/1