thanks Falk
Bruce
On Fri, 18 Mar 2016, Falk Lüsebrink wrote:

>
> Hi Bruce,
>
>  
>
> I have applied one of his denoising algorithms on my high resolution
> datasets and also got very nice results. I used it on a single subject only,
> however, this could be beneficial for the upcoming hires pipeline to account
> for lower SNR.
>
>  
>
> You can find his algorithms and publications here:
>
>  
>
> https://sites.google.com/site/pierrickcoupe/softwares/denoising-for-medical
> -imaging/mri-denoising/mri-denoising-software
>
>  
>
> Best,
>
> Falk
>
>  
>
> Von: Bruce Fischl
> Gesendet: Freitag, 18. März 2016 19:43
> An: Freesurfer support list
> Betreff: Re: [Freesurfer] Replacing / turning off denoising filter
>
>  
>
> that's interesting. Is it open source? If so, can you point us at it? Maybe
> someone should compare it to the version I wrote 20 years ago :)
>
> On Fri, 18 Mar 2016, Mojmír Vinkler wrote:
>
> > Thanks!
> > Just FYI - we applied newer version of NLME from Pierrick Coupé before
> > running freesurfer and it greatly improved segmentation results.
> >
> > On Wed, Mar 16, 2016 at 3:47 PM Bruce Fischl <fischl@nmr.mgh.harvard.edu>
> > wrote:
> >       Hi Mojmir
> >
> >       we don't apply mri_nlfilter by default so there is no need to
> >       turn it
> >       off. You are welcome to try it out. It implement some nonlinear
> >       filters
> >       including what is now called nonlocal means as described in this
> >       paper:
> >
> >http://ieeexplore.ieee.org/xpl/abstractAuthors.jsp?reload=true&arnumber=745
>
> >       732
> >
> >
> >       cheers
> >       Bruce
> >
> >       On
> >       Wed, 16 Mar 2016, Mojmír Vinkler wrote:
> >
> >       > Hi,
> >       > I was wondering if it's possible to replace or turn off your
> >       denoising
> >       > algorithm `mri_nlfilter`. We'd like to try different denoising
> >       filters and
> >       > compare how they influence segmentation performance. Right now
> >       we're
> >       > applying filter before running recon-all, but I fear that
> >       applying your
> >       > filter on already filtered image might degrade our analysis.
> >       >
> >       > I couldn't find any mention of mri_nlfilter besides this one
> >       onmailinglisthttps://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-Octo
> ber/020
> >       762.
> >       > html. I hope I didn't miss something anything.
> >       >
> >       > Thanks!
> >       > Mojmir
> >       >
> >       >_______________________________________________
> >       Freesurfer mailing list
> >       Freesurfer@nmr.mgh.harvard.edu
> >       https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >
> >
> >       The information in this e-mail is intended only for the person
> >       to whom it is
> >       addressed. If you believe this e-mail was sent to you in error
> >       and the e-mail
> >       contains patient information, please contact the Partners
> >       Compliance HelpLine at
> >       http://www.partners.org/complianceline . If the e-mail was sent
> >       to you in error
> >       but does not contain patient information, please contact the
> >       sender and properly
> >       dispose of the e-mail.
> >
> >
> >
>
>_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.