We have a new microscope (Olympus) with one camera (Andor iXon 888 1k x 1k EMCCD) and an OptoSplit III device to split the chip into 2 or 3 channels. We acquire images via metamorph. When we try to open the images via Bioformats, they are not recognized as multi-color images, but rather just as if they are 1-color full chip images.
We have an equivalent set up on an older microscope (with some differences, described next), which we also control via metamorph, and Bioformats is able to open those images correctly. One difference between the old and new microscope images is that from our old microscope the images are 512x1024 and the split is vertical (so each color is 512x512), while from our new microscope the images are 1024x1024 and the split is horizontal (so each color is 512x1024). In the case of 3-way splitting, each color would be ~341x1024 on our new microscope.
For context, the differences between our old and new microscope are as follows:
(1) Old microscope has two photometrics EMCCDs while new microscope has 1 Andor EMCCD camera and a splitter.
(2) Old microscope is a hybrid from Nikon and Spectral Applied Research, while new microscope is from Olympus.
But again we use metamorph in both cases, with equivalent stream acquisition settings, and the files are stored in TIFF format in both cases.
Could you help us get those images read properly using Bioformats (we really like Bioformats)? I can supply example images if you let me know where to upload them. Thank you.