Wait, I'm confused, in v 4.5 (which I'm using) the paradigm files have 4 values per line (starting time, condition, length, and weight), so don't they have the lengths in there? I know you could use an older paradigm file with only 2 columns (starting time, condition), and in this case I would list each TR and the condition there, but the wiki says that v. 4.5 can use the 4 column paradigm files. Is that not true? I mean it obviously uses the weights....
I ran an event related analysis with -noautostimdur in the analysis, with a 4 column paradigm file. I did not list every TR, but used the 3rd column to list the length of time. I got what appears to be valid data out. When I redid it with -autostimdur, I got very little activation. But if the -noautostimdur assumes that each event is equal to the TR (which is shorter than the actual durations I have), then wouldn't the analysis have had problems because I didn't cover all the TRs in the paradigm file? But it worked fine. I'm very confused here. Also, is there a difference between the way this is used in FIR and Gamma analyses? Katie On Fri, Apr 15, 2011 at 2:33 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > FYI: autostimdur is not valid in version 5.X because the stimulus duration > is supplied in the paradigm file. For earlier versions, there was no info in > the par file about the duration. The -autostimdur will compute the duration > of the stimulus from the paradigm file based upon the time to the next > stimulus entry this works as long as all time is accounted for in the > parfile and no stimuli overlap. If you use -no-autostimdur, then it will > assume that the duration of the event is equal to the TR. > > doug > > > Katie Bettencourt wrote: > >> I'm a bit confused about what the -autostimdur and -noautostimdur flags in >> mkanalysis-sess do. I've checked the help files, but the wording is a bit >> confusing, and when I run them on my event related design, I get different >> results depending on which flag I use, with the -noautostimdur being more of >> what I expect as far as results go. >> >> Also, they are only used in event related and AB designs, not blocked, >> correct? >> >> Katie >> > > -- > 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 > > > > 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. > >
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