Hi, I am doing tractography and I was checking the forum and found this message. I am a beginner so I'm sorry if the question sounds silly but why is it necessary to do this if after running probtrackx one gets the waytotal that as far as I understand already contains the number of stream lines? What is the difference between what one gets doing this and the waytotal? Thank you, 2014-05-22 6:08 GMT-07:00 Saad Jbabdi <[log in to unmask]>: > Hi > Can you try the same thing but after binarising the mask? This should > give you the same resuts with matlab and fslstats. > > Saad > > On 21 May 2014, at 18:39, Jiook Cha <[log in to unmask]> wrote: > > Dear Saad and tractography experts, > > I recently compared two different methods to count the number of > streamlines on a fdt_paths image applying a target mask, which showed > different results. > > Firstly, I used [fslstats fdt_paths -M $mask] to get "mean of the values' > and [fslstats fdt_paths -V $mask] to get the 'number of non-zero voxels". > I then multiply them. > > Secondly, I load the fdt_path into matlab and just sum up all the values > within the same mask. > > These two measures, however, are not same. The first method show a 13% > increase than the second summation on matlab. > > > Have you experienced a similar issue before? What method would you > recommend? > Thanks for your help in advance. > > > Best, > Jiook > > > -- > Saad Jbabdi > University of Oxford, FMRIB Centre > > JR Hospital, Headington, OX3 9DU, UK > (+44)1865-222466 (fax 717) > www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi > >