Hi Yingtian, the path distribution correction option should create extra output files with the suffix _lengths so you get results with and without correction Moises On Tue, 30 Oct 2018 at 10:46, Yingtian Hu <[log in to unmask]> wrote: > Dear FSL experts, > > I have some questions about the path distribution correction option in > probtrackx2. I checked the help manual and found that --pd option is used > to do the path distribution correction. After running the script with > --pd, I found that new-created fdt_network_matrix and waytotal had no > difference with the results produced by the scripts without --pd option. > Since my goal was the distribution corrected probabilistic tractography, > the results were still the same after adding --pd option because my > calculation of probabilistic tractography only depends on > fdt_network_matrix and waytotal. In addition, I noticed that there was a > change of the fdt_paths.nii.gz file, which means there was a difference > between results produced by two scripts. > > Would it be possible to explain why I got those results and how path > distribution correction actually works? I also attached the script I used > at the end of the message. > > Thank you very much. > > Sincerely, > Yingtian > > > /usr/local/fsl/bin/probtrackx2 \ > --network -x ${save_path}/targets_Power.txt \ > -l -c 0.2 -S 2000 \ > --steplength=0.5 -P 5000 \ > --pd \ > --xfm=${pathproc}/${subject}/data_${method}.bedpostX/xfms/standard2diff.mat > \ > --forcedir --opd -s ${bpx_path}/merged \ > -m ${bpx_path}/nodif_brain_mask \ > --dir=${save_path} \ > --avoid=/cbis/projects/brain/R01DPS/analysis/templates/CSF.nii \ > --omatrix1 > > ######################################################################## > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1