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Design give me stimuli s TS1 analy 1D TS2 analy 1D TS3 analy 1D TS4 analy 1D TSall analy 1D concat 1D E Prime Programming Collect Data analyze ts fwhm4 s register s register s register many image files to AFNI format format 3dTshift slice timing adjustment 3dvolreg motion correction 3dTcat concatenate all fMRI data together 3dmerge spatial blurring mask generation identify brain region with 3dcalc or 3dAutomask Link design matrix TSall analy 1D concat 1D 3dDeconvolve deconv s Compare fMRI image data with design matrix decon TS the bucket PerSigCh s calculate signal change FLY group ANOVA2 analyze s group analysis from all subjects MonteCarlo moreIterfwhm4 s MonteCarlo moreIterfwhm4 s AlphaSim gen clusterP5103 s l P5103 3d 3dclust l andd 3dmerge 3d cluster l analysis l i Final results bin tcsh To design the experiment David C Zhu Spring 2007 4 runs experiment parameters set ts 164 set stim 3 set num on 32 length of timeseries number of input stimuli time points ON per stimulus type between 0 and ts 3 execution parameters set iterations 200 number of iterations set seed 1 1628873 initial random seed for set seed 2 2734891 initial random seed for set seed 3 5734792 initial random seed for set seed 4 6724890 initial random seed for set outdir stim TSall results set LCfile outdir LC sums 1st 2nd 3nd 4nd run run run run rm f R outdir make sure outdir exists if d outdir then mkdir outdir if status then echo failure cannot create output directory outdir exit endif endif create empty LC file echo n LCfile echo n iteration 000 run the test many times foreach iter count digits 3 1 iterations make some other random seed for Run 1 seed 1 seed 1 1 create random order stim files RSFgen nt ts num stimts stim nreps 1 num on seed 1 prefix RSF stim run1 iter dev null nreps 2 num on nreps 3 num on seed make some other random seed for Run 2 seed 2 seed 2 1 create random order stim files RSFgen nt ts num stimts stim nreps 1 num on nreps 2 num on seed 2 prefix RSF stim run2 iter dev null



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