Hi - if by concatenating, you just mean adding the images, then you can do that with fslmaths. There is no limit as to how many images you can add. The results should not be binarised, unless requested in fslmaths with the "-bin" flag.
Are you sure it is not just a matter of setting the min-max visualisation settings correctly in fslview?
Note: if you want to know the upper and lower values of an image, you can use "fslstats -R"
Cheers
Saad
On 2 Nov 2012, at 10:06, Sean Hatton wrote:
> Hi all,
>
> We are concatenating white matter tracts from probtrackx and having a strange problem. The tracts are binarised to a threshold of 99%. When we start concatenating the tracts (fslmaths image1 -add image2 etc output) all goes well until we hit around n=25, any more and the whole image is binarised. We have n=80 and we can create three concatenated images of n=~25, but then joining them together binarises them. Is there an upper limit to the number of images you can concatenate with fslmaths before it falls over?
>
> Cheers,
>
>
> Sean Hatton
> Brain & Mind Research Institute
> University of Sydney
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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