I'd suggest creating a job via the ui, saving it as a .m file, editing this to change the fwhm and running the modified job file.
The segmentation just fits a model to the data. It doesn't change the data first. I don't know if denoising helps, but I guess you could try running it on the data beforehand (or afterwards on the bias corrected version).
Best regards,
John
Falk Lüsebrink <[log in to unmask]> wrote:
>Dear all,
>
>I am working on high resolution 7T anatomical data and utilize SPM's bias field correction as part of my pre-processing. I have two questions regarding the bias field correction.
>
>First, to change the FWHM to lower values than can be specified using the GUI, I wrote a short script to create a job and feed it to spm_preproc_run.m However, as I am not interested in the segmentation during pre-processing I would like to disable it. Is this somehow possible? It would speed up the pre-processing greatly.
>
>Second, does the bias field correction involve any transformation of the input data? In case of some datasets I want to apply a denoising algorithm and I am trying to figure out at which stage in the pipeline I should apply it for best results. As transformation would result in a change of noise distribution, I would want to avoid it.
>
>Thank you very much!
>
>Best regards,
>Falk
>
>----------------------------------------
>Falk Lüsebrink, M. Sc.
>Otto-von-Guericke University, Magdeburg, Germany
>Forschungscampus STIMULATE
>http://www.forschungscampus-stimulate.de/
>
>Universitätsplatz 2
>39106 Magdeburg
>
>Room: ExFa - 4.06
>Phone: +49 391-67-19366
>Fax: +49 391-67-19347
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