Hello
> Could you explain those number and how to calculate those ?
>
> Thank you for in advance.
>
> ---------------------------------------------
> /Applications/fsl/bin/fslstats prefiltered_func_data_mcf -p 2 -p 98
> 15.183976 881.029236
taking the above numbers as the 2nd and 98th percentile intensities
2nd + (brain/background threshold percentage) * ( 98th - 2nd )
>
> /Applications/fsl/bin/fslmaths prefiltered_func_data_mcf -thr 101.768502 -Tmin -bin mask -odt char # where did 101.768502 comes from ?
>
> /Applications/fsl/bin/fslstats prefiltered_func_data_mcf -k mask -p 50
> 470.294495
>
> /Applications/fsl/bin/fslmaths mask -dilF mask
>
> /Applications/fsl/bin/fslmaths prefiltered_func_data_mcf -mas mask prefiltered_func_data_thresh
>
> /Applications/fsl/bin/fslmaths prefiltered_func_data_thresh -mul 21.2632724948 prefiltered_func_data_intnorm # where did 21.2632... come from ?
21.26 is the grand-mean intensity normalisation factor ( to give a median brain intensity of 10000 )
>
> /Applications/fsl/bin/fslmaths prefiltered_func_data_intnorm -Tmean tempMean
>
> /Applications/fsl/bin/fslmaths prefiltered_func_data_intnorm -bptf 50.0 -1 -add tempMean prefiltered_func_data_tempfilt
> ---------------------------------------------
Hope this helps,
Kind Regards
Matthew
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