[FieldTrip] ROC CURVE

Mon Jun 13 18:32:06 CEST 2016

Dear fieldtriper,

How can I plot the ROC curve if I want to compare different inverse problems?
if dipole is active or not.
what should be the threshold?
I have the simulated and estimated data on the mesh as an input

thank you

> From: fieldtrip-request at science.ru.nl
> Subject: fieldtrip Digest, Vol 67, Issue 12
> To: fieldtrip at science.ru.nl
> Date: Mon, 13 Jun 2016 11:10:44 +0200
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> Today's Topics:
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>    1. Re: help diagnosing issues with source analysis (pathological
>       brain) (Vitoria Piai)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Mon, 13 Jun 2016 11:02:11 +0200
> From: Vitoria Piai <v.piai.research at gmail.com>
> To: FieldTrip discussion list <fieldtrip at science.ru.nl>
> Subject: Re: [FieldTrip] help diagnosing issues with source analysis
> 	(pathological brain)
> Message-ID:
> 	<CADAXq1R_6ZCan=fXW2Vg4hbixeqdMKW0auOr1vMLvk6CBSA5Uw at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
> 
> Hi Cris,
> 
> that makes sense, except that the .mri file I'm getting from the hospital
> should already contain the right fiducial coordinates (or so I was told by
> the MEG technician). Maybe the issue is that FieldTrip is not getting these
> coordinates right from the .mri file if I don't run it through
> ft_volumerealign first.
> Any thoughts anyone?
> 
> Thanks again
> 
> On 12 June 2016 at 13:55, Cristiano Micheli <michelic72 at gmail.com> wrote:
> 
> > Dear Vitoria
> >
> > I had the same problem when I tried to coregister functional and
> > anatomical data without transitioning through a head-referenced coordinates
> > system.
> > I solved the problem by using ft_volumerealign and selecting comparable
> > anatomical fiducials for different subjects (nasion, left, right,..) BEFORE
> > volume normalization.
> >
> > Maybe a hint towards the solution?
> >
> > Cheers
> > Cris
> >
> >
> > On Sat, Jun 11, 2016 at 8:50 PM, Vit?ria Piai <v.piai.research at gmail.com>
> > wrote:
> >
> >> Hi everyone,
> >>
> >> I was hoping someone could help me figure out where my source analysis is
> >> going wrong.
> >> I have data on brain tumour patients (MRIs are from prior to tumour
> >> resection). From the hospital (using CTF), I receive .mri files that
> >> already have fiducial points saved as far as I was told. I then reslice and
> >> segment the .mri file, after reading it with ft_read_mri
> >> mri_reslice             = ft_volumereslice([], mri);
> >> segmentedmri = ft_volumesegment([], mri_reslice);
> >> This seems to be working:
> >>
> >>
> >> Plotting headmodel and sensors, it looks like they are aligned:
> >>
> >> If I compute the source model with MNI-warping (non-linear
> >> transformation), I get something that doesn't seem right. I don't know if
> >> this is because these are not normal brains to start with:
> >>
> >> With linear transformation, things look better:
> >>
> >>  One of my questions is what the consequences are of using linear
> >> transformation for the MNI warping given the pathological nature of these
> >> brains.
> >>
> >> Then, the next issue is this result when projecting the source to the
> >> surface:
> >>
> >> This happens regardless of whether I use the MNI-warped grid interpolated
> >> to the MNI template, or the patient's individual grid skipping the MNI
> >> normalisation step, interpolated to the patient's own T1.
> >> But if I plot with 'ortho' method, then I see that the MNI-warped and
> >> interpolated source data is misaligned, but the patient-native space one
> >> isn't.
> >>
> >>
> >> I can't make sense of this anymore; I've been trying all kinds of things
> >> that don't work, so I was wondering whether anyone has an idea of what
> >> could be going on by looking at these figures. Is it an error already at
> >> the level of alignment of the fiducials? Or is it due to the MNI-warping?
> >> Or a combination of issues?
> >>
> >> Thanks very much for any kind of help!
> >> Vitoria
> >>
> >> _______________________________________________
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> >>
> >
> >
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