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To use the program pff2ppm:

  Convert data from a PFF format file to a series of PGM images.

  For help, just type: pff2ppm

  The following command generates 7 ppm files with the base name "test"
  of t = 0, z=0-6:

    pff2ppm /afs/cs/project/theo-35/fmri/02882_34/detrend.dat test 0 0 0 6

  The following command generates 10 ppm files with the base name "test"
  of t = 0-9, z=3:

    pff2ppm /afs/cs/project/theo-35/fmri/02882_34/detrend.dat test 0 9 3 3

  The following command generates 100 ppm files with the base name "test"
  of t = 0-99, z=3:

    pff2ppm -t 3450 /afs/cs/project/theo-35/fmri/02882_34/detrend.dat test 0 99 3 3

  The following command generates 10 ppm files with the base name "test",
  all of the z slices for a particular time are merged into a single image:

    pff2ppm -zm 1 -t 3450 /afs/cs/project/theo-35/fmri/02882_34/detrend.dat test 0 9 0 6


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To use the program pff2txt:

  Convert and crop data from a PFF format file to a series
  ascii text data files.

  For help, just type: pff2txt

  The following command generates data files for the lb area:

    pff2txt -cf /afs/cs/project/theo-35/fmri/02882_34/02882_voxinfo/02882.LB.fs.list -tf /afs/cs/project/theo-35/fmri/02882_34/2882tsp1 /afs/cs/project/theo-35/fmri/02882_34/detrend.dat /afs/cs/project/theo-35/fmri/02882_34/lb_data/02882_lb

  The following command generates data files for the lblt area:

    pff2txt -cf /afs/cs/project/theo-35/fmri/02930_41/02930_voxinfo/02930.LBLT.fs.list -tf /afs/cs/project/theo-35/fmri/02930_41/2930tsp1 /afs/cs/project/theo-35/fmri/02930_41/detrend.dat /afs/cs/project/theo-35/fmri/02930_41/lblt_data/02930_lblt

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To use the program pffvar:

  Calculate the mean and variance of the data in a pff file.

  For help, just type: pffvar:

  The following command generates "pff" files containing the mean, variance,
  and standard deviation of the entire sequence of data in the 
  "02882_34" directory:

    pffvar -mf 02882_mean.pff -vf 02882_var.pff -sf 02882_stdev.pff /afs/cs/project/theo-35/fmri/02882_34/detrend.dat 

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To use the program pffhist:

  Calculate a histogram of the data in a pff file.

  For help, just type: pffhist

  The following command generates a histogram for the file "02882_var.pff"
  cotaining variance data:

    pffhist -ts 0 -te 0 02882_var.pff > 02882_var.hist

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Pretty voxel plotting of LB MSE data - full brain version:

pff2ppm -sc 2 -pa -1 -ds 10000 -cm 5 -pf lb-predictability.vox -zm 1 /afs/cs/project/theo-35/fmri/02882_34/stats/02882_mean.pff lb-pred 0 0 0 6
rm -f lb-pred_t000.gif
ppmquant 256 lb-pred_t000.ppm | ppmtogif > lb-pred_t000.gif

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Pretty voxel plotting of LB MSE data - cropped version:

pff2ppm -sc 4 -xs 35 -xe 55 -ys 10 -ye 30 -pa -1 -ds 10000 -cm 5 -pf lb-predictability.vox -zm 1 /afs/cs/project/theo-35/fmri/02882_34/stats/02882_mean.pff lb-pred-crop 0 0 0 6
rm -f lb-pred-crop_t000.gif
ppmquant 256 lb-pred-crop_t000.ppm | ppmtogif > lb-pred-crop_t000.gif

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Pretty voxel plotting of LB MSE data - full brain version - straight to gif:

rm -f lb-pred_t000.gif
pff2ppm -sc 2 -pa -1 -ds 10000 -cm 5 -pf lb-predictability.vox -zm 1 /afs/cs/project/theo-35/fmri/02882_34/stats/02882_mean.pff stdout 0 0 0 6 | ppmquant 256 | ppmtogif > lb-pred_t000.gif

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Pretty voxel plotting of LB MSE data - cropped version - staright to gif:

rm -f lb-pred-crop_t000.gif
pff2ppm -sc 4 -xs 35 -xe 55 -ys 10 -ye 30 -pa -1 -ds 10000 -cm 5 -pf lb-predictability.vox -zm 1 /afs/cs/project/theo-35/fmri/02882_34/stats/02882_mean.pff stdout 0 0 0 6 | ppmquant 256 | ppmtogif > lb-pred-crop_t000.gif

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