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Hi, I am trying to generate a fieldmap using two echos from a multi-echo gradient-echo sequence. After reading instructions from FUGUE guide https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FUGUE/Guide, I am a bit confused about the necessary steps: Since I acquired the data from a Siemens scanner I am supposed to use fsl_prepare_fieldmap. However I do not have a single "phase image" but just two phase images from two echo times. In this case, should I go through the procedures of unwrapping the phase images and calculate phase difference image using fslmaths? Then using the phase difference image and (concatenated?) magnitude image as inputs for fsl_prepare_fieldmap? Or I should go over the whole procedures for "NON-SIEMENS" data? Thank you very much! Best Xinyu ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 This message was issued to members of www.jiscmail.ac.uk/FSL, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/