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Hi FSL experts, I have three runs per subject acquired at the same session - two resting state and a task, which have the same spatial and temporal resolutions. I created a mask from a cluster of activation from the task group-level analysis and wanted to transform it from standard to native space for each of the three runs in each subject. However, for each run in the same subject, I get a slightly different transformed mask with different number of voxels. In addition, for different subjects I get significantly different masks in terms of voxels number - isn't a specific MNI mask transformation to different native spaces suppose to yield the same native-space mask in terms of voxels number across all subjects? I have followed the instructions on the web to conduct the invert transformation (with my own paths and file names of course): invwarp -w highres2standard_warp -o standard2highres_warp -r highres applywarp -i activationMaskMNI -r example_func -o activationMaskNative -w standard2highres_warp --postmat=highres2example_func.mat I would very appreciate any insights, Many thanks, Tamir ######################################################################## 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/