I would like to use anatomical masks from the Jerne database. See http://neuro.imm.dtu.dk/services/jerne/ninf/voi.html
Although these images are in MNI 2x2x2 mm space, the dimensions are different (79x95x68) from the standard FSL MNI space (91x109x91) and cannot be overlaid in fslview. Unfortunately, the database does not provide a whole brain image which could have been used for registration to the FSL standard brain (the resulting transformation matrix could then be used for registration of other masks).
Any idea how to use flirt to transform the mask image to FSL MNI space? I found out that other people had the same problem in the past, but the solution has never been published on this mailing list.
Thanks in advance for your reply.
Henk van Steenbergen
Leiden Institute for Brain and Cognition