Hi, I need to export my (originally acquired on a Bruker 2-photon microscope) multichannel .tif zstacks in .nrrd format but the exported file is not preserving the file structure. The saved .nrrd contains the different channel slices in an interleaved (sequential) fashion.
Is there any other path to achieve this conversion to any other medical imaging format (e.g. DICOM) while preserving the file structure? I would like to import my data into 3Dslicer or simple elastix to perform non rigid registration of my volumes but they lack any support for BioFormats.
I uploaded a small tif substack and its nrrd conversion result.
nrrdconversion.zip (6.9 MB)