Like the central FSL tools, if you type the command on its own and press return you will get usage information. In this case (for the current version) it is:
Usage: autoPtx_1_preproc <image1> <image2> ...
With 'image1' etc. the DWI data for each subject in a separate dir. Note
that the directory name should be unique for each subject, and that this
data will be moved."
Next to the datafile, the following files are expected to be available:
- 'bvecs' text file containing bvectors in 'dtifit' format
- 'bvals' text file containing b-values in 'dtifit' format
- 'nodif_brain_mask' brain mask image
The formats of the individual files are the same as for bedpost and probtrack.
I hope this answers your question.
All the best,
> On 4 Aug 2017, at 21:57, Chelsea <[log in to unmask]> wrote:
> I am trying to use AutoPtx to identify the Uncinate fasciculus in a group of subjects however I cannot find instructions for how to use autoPtx_1_preproc and autoPtx_2_launchTractograpy. For example, what should the inputs be? Is this in the same format as bedpostx and probtrackx?
> The wiki page (https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/AutoPtx) does not describe how to use the plug in. Can you please point me in the right direction to get instructions on how to use this plug in.
> Thank you very much!