Hello Daniel,
The option you want is --uncorrp ( if randomise is run with no options, it will print help-text for all options ).
Kind Regards
Matthew
--------------------------------
Dr Matthew Webster
FMRIB Centre
John Radcliffe Hospital
University of Oxford
> On 25 Apr 2019, at 13:55, Daniel Callow <[log in to unmask]> wrote:
>
> Hello,
>
> I am running an ANOVA with fsl's randomise on some tbss data and would like to get both corrected and uncorrected pvalue outputs.
>
> I currently only get corrected pvalues with the following scripts.
>
> randomise -i /Volumes/DANIEL/dti_FDT_FA_freesurf_MCIP/stats/all_RD.nii.gz -o whole_RD_Anova -d design.mat -t design.con -m /Volumes/DANIEL/dti_FDT_FA_freesurf_MCIP/stats/mean_FA_skeleton_mask.nii.gz -n 5000 -D --T2
>
> and
>
> randomise -i /Volumes/DANIEL/dti_FDT_FA_freesurf_MCIP/stats/all_RD.nii.gz -o whole_RD_Anova -d design.mat -t design.con -m /Volumes/DANIEL/dti_FDT_FA_freesurf_MCIP/stats/mean_FA_skeleton_mask.nii.gz -n 5000 -D --T2
>
>
> how can I get
>
> 1 - Uncorrected P
>
> _vox_p_tstat
> _vox_p_fstat
>
> _tfce_p_tstat
> _tfce_p_fstat
>
> as shown in the randomise documentation https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Randomise/UserGuide?
>
> Best,
> Daniel Callow
>
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