Many (too many?) file formats exist for microscopy, with no real universal solution in sight.
Luckily we benefit from Bio-Formats to open most of them with OMERO and Fiji
Always save your images using the microscope vendor's default file format
Microscope software may offer to export as tif but they tend to di it very poorly (losing metadata)
Check if a lossy compression is activated and report it if it is
Lossy (as opposed to lossless) compression, means you save harddrive space but you lose information. Please get in touch with us if you wish to ensure that a lossy compression scheme it will not compromise your image analysis.
Maintained by SVI this file format was/is a common ground to many software (including, but not limited to, Huygens, Imaris, Fiji ... )
Developped and maintained by the OME is a standard for many software and allows pyramidal file formats.
In Fiji, you can convert your file to ome-file using
You can use the OME NGFF-converter to convert your images to the OME-NGFF format.