Thanks for the reply. I had indeed looked at your toolbox (and should have
mentioned this), but it appears as if whole slices are discarded which in
our case will not be necessary as we really only have one or two lines
affected in 2 or slices.
I may try anyway.
----- Original Message -----
From: "Paul Mazaika" <[log in to unmask]>
To: "Helmut Laufs" <[log in to unmask]>
Sent: Tuesday, July 15, 2008 10:04 PM
Subject: Re: [SPM] interpolate slice artifact
The ArtRepair software package may work for you. You can get it for
SPM5 from SPM Extensions, or from our website cibsr.stanford.edu. It
works for 3D Nifti formats, but it may have bugs for 4D .nii format.
The noise filtering option automatically finds bad SLICES, and fixes
them, and writes a logfile of what it did.
Type >> help art_slice for a description of the options.
Use >> art_movie to visually review how well it fixed the line artifact.
Quoting Helmut Laufs <[log in to unmask]>:
> Dear List,
> We would not like to reinvent the wheel, hence the following question:
> has anybody got a script (ideally matlab, ideally working with Nifti
> images) which removes line artifacts by means of interpolation? The idea
> is to doctor away phase interpolation artifacts along the y direction on
> axial slices. Ideally, these lines will be automatically detected by
> e.g. means of a threshold criterion on the background, however a function
> símply accepting the image volume, slice number and "column" would be
> Any [close] solutions will be highly appreciated.
> Thank you!
Paul K. Mazaika, PhD
Center for Interdisciplinary Brain Sciences Research
Stanford University School of Medicine
401 Quarry Road, MC 5795
Stanford, Ca 94305
Office: (650)724-6646 Cell: (650)799-8319
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