Hi, I have successfully installed the MBIS software according to the author’s github websit, https://github.com/oesteban/MBIS/wiki/Installation. However, I still don’t know how to use it. I type “–help” on the terminal and obtation some option informations, but there is no option indicate the input path of the data.
Dear @xgt, the input data is provided with the -C option. For instance, if you have two nifti files, one with a T1-weighted image and a second with a T2-weighted image:
-C T1w.nii.gz T2w.nii.gz
Hi,
I am trying to use MBIS with docker, using command:
docker run -ti --rm
-v /Users/dima/Desktop/sub-MU004:/Users/dima/Desktop/sub-MU004
oesteban/mbis
-C /Users/dima/Desktop/sub-MU004/sub-MU004_ses-06_space-template_desc-norm_T2star.nii.gz
/Users/dima/Desktop/sub-MU004/sub-MU004_ses-06_space-template_desc-norm_SWI.nii.gz
–out segmented
–output-stats
–segments
–class 5
the segmentation seems to work:
but I dont get any output and there is no flag for specifying the output folder
Does anybody have any idea where the results are stored?
Thank you very much!
Cheers,
Dima
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