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Thanks Matt, That does appear to be the case. Amanda On Wed, Aug 3, 2022 at 3:53 PM Matthew Webster < [log in to unmask]> wrote: > Hello Amanda, > Do these “holes” in the skeleton for <blah>_tfce_tstat* correspond to > voxels where the corresponding “raw” t-stat, <blah>_tstat*, is negative? > This would be expected from how the TFCE scores are calculated, and so the > 0’s in the *p* images would be correctly inferred. > > Kind Regards > Matthew > -------------------------------- > Dr Matthew Webster > FMRIB Centre > John Radcliffe Hospital > University of Oxford > > On 3 Aug 2022, at 17:41, Amanda Rodrigue <[log in to unmask]> wrote: > > Hello again, > I altered my design file as follows (demeaned sex-3 and age-4 and left the > grouping variable 1/2 alone): > > design.mat > /NumWaves 4 > /NumPoints 413 > /Matrix > 0 1 -0.525423729 13.75544794 > 1 0 -0.525423729 16.75544794 > 1 0 -0.525423729 9.755447942 > 1 0 0.474576271 -12.24455206 > 1 0 -0.525423729 9.755447942 > 1 0 -0.525423729 -10.24455206 .... > > design.con > /NumWaves 4 > /NumPoints 6 > /Matrix > 1 -1 0 0 > -1 1 0 0 > 0 0 1 0 > 0 0 -1 0 > 0 0 0 1 > 0 0 0 -1 > > For contrasts 2 and 5 (although I don't expect many significant > differences when thresholding between .95-1), it still appears that the > _tfce_tstat*, tfce_p_tstat*, and the _tfce_corrp_tstat* associated with > those contrasts do not have values allocated to the whole skeleton > regardless of what threshold I set. The original _tstat file does appear to > have a value for all voxels in the skeleton. Is this correct? > > Thanks, > Amanda > > ######################################################################## > > 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/ > > > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 > -- Amanda Rodrigue, PhD Boston Children's Hospital Harvard Medical School 1 Autumn St. Boston, MA 02215 ######################################################################## 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/