Thanks Doug, If I don't specify a contrast with funcroi-config, then, the value I get from funcroi-table-sess is the average across all conditions including fixation?
What I want to get is a non-thresholded value for each condition. So I should specify a contrast with funcroi-config, correct? And -c flag with funcroi-config requires -sign and -thresh. So, I guess I'm still stuck to my first question. >>>> Q1) >>>> If I don't want to use any thresholding for ROI analysis, can I use "-sign >>>> abs -thresh 0" with funcroi-config? What do you think? Yuko On Dec 8, 2010, at 4:09 AM, Douglas N Greve wrote: > Good point! This is a slight bug in the program that it requires a > contrast when you ask for the volume. This is because the volume is > completely set once you run funcroi-sess, so it won't make a difference > what contrast you specify. The contrast only matters when you ask it to > report a mean of a contrast. So, you can just specify any contrast in > your analysis, or you can download a new version: > > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/funcroi-table-sess > > I've updated the docs for this one as well. > > thanks > > doug > > > Yuko Yotsumoto wrote: >> Thanks Doug, >> >> On Dec 7, 2010, at 12:02 AM, Douglas N Greve wrote: >> >> >>>> I'm using: >>>> freesurfer-Darwin-leopard-i686-stable-pub-v5.0.0 >>>> >>>> Q1) >>>> If I don't want to use any thresholding for ROI analysis, can I use "-sign >>>> abs -thresh 0" with funcroi-config? >>>> >>>> >>> Even easier: just don't specify a contrast. >>> >> >> >> Let me clarify. I can run funcroi-config without a contrast, but >> funcroi-table-sess requires one. >> Does this mean I don't specify a contrast with funcroi-config, but use -c >> with funcroi-table-sess gives all values within the label? >> >> Yuko >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
