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Beauchamp:Retinotopy: Difference between revisions
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→Processing Phase-Mapped Retinotopy Data in AFNI
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3dDFT -prefix {$ec}r{$r}vrdtblFFT -detrend junkr{$r}+orig | 3dDFT -prefix {$ec}r{$r}vrdtblFFT -detrend junkr{$r}+orig | ||
end | end | ||
The retinotopic stimulus has a periodicity at frequency 5, so calculate phase at only that frequency for all runs. Then, calculate amplitude squared (power) at all frequencies for all runs. | The retinotopic stimulus has a periodicity at frequency 5, so calculate phase at only that frequency for all runs and label the subbrick. Then, calculate amplitude squared (power) at all frequencies for all runs. | ||
foreach r (1 2 3 4 5 6 7 8) | foreach r (1 2 3 4 5 6 7 8) | ||
3dcalc -datum short -prefix {$ec}r{$r}vrdtblFFTf5 -cx2r PHASE -a {$ec}r{$r}vrdtblFFT+orig'[5]' -expr "a" | 3dcalc -datum short -prefix {$ec}r{$r}vrdtblFFTf5 -cx2r PHASE -a {$ec}r{$r}vrdtblFFT+orig'[5]' -expr "a" | ||
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3dcalc -datum short -prefix {$ec}r{$r}vrdtblFFTMAG -cx2r ABS -a {$ec}r{$r}vrdtblFFT+orig -expr "a*a" | 3dcalc -datum short -prefix {$ec}r{$r}vrdtblFFTMAG -cx2r ABS -a {$ec}r{$r}vrdtblFFT+orig -expr "a*a" | ||
end | end | ||
Average amplitude squared across runs: | |||
Average | |||
3dMean -prefix {$ec}rallvrdtblFFTMAG {$ec}r?vrdtblFFTMAG+orig.HEAD | 3dMean -prefix {$ec}rallvrdtblFFTMAG {$ec}r?vrdtblFFTMAG+orig.HEAD | ||
Calculate the Fratio between the frequency of interest and neighboring frequencies | |||
Calculate Fratio between frequency of interest and neighboring frequencies | |||
rm junk* | rm junk* | ||
3dcalc -prefix junkMAGSTAT -a3 {$ec}rallvrdtblFFTMAG+orig -b4 {$ec}rallvrdtblFFTMAG+orig -c5 {$ec}rallvrdtblFFTMAG+orig | 3dcalc -prefix junkMAGSTAT -a3 {$ec}rallvrdtblFFTMAG+orig -b4 {$ec}rallvrdtblFFTMAG+orig -c5 | ||
{$ec}rallvrdtblFFTMAG+orig -d6 {$ec}rallvrdtblFFTMAG+orig -e7 {$ec}rallvrdtblFFTMAG+orig -expr "c^2 / ( (a^2 | |||
+ b^2 + d^2 + e^2)/4 )" | |||
Convert to fbuc | Convert to fbuc: | ||
3dbucket -prefix {$ec}rallvrdtblFFTMAGSTAT -fbuc junkMAGSTAT+orig | 3dbucket -prefix {$ec}rallvrdtblFFTMAGSTAT -fbuc junkMAGSTAT+orig | ||
Give it correct stats--numerator degrees of freedom is 2*number of runs, denominator degrees of freedom is 4*number of runs | Give it correct stats--numerator degrees of freedom is 2*number of runs, denominator degrees of freedom is 4*number of runs | ||
