"LL" stand for LogLikelihood ? ;-)

On Tue, Jun 25, 2013 at 10:57 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

for the aseg it's these lines:
.
.
.
pass 1: 89966 changed. image ll: -2.224, PF=1.000
pass 2: 15019 changed. image ll: -2.221, PF=1.000
pass 3: 5116 changed.
pass 4: 2124 changed.
writing labeled volume to aseg.auto_noCCseg.mgz...

although I guess I only compute it for the first couple of iterations of ICM

cheers
Bruce


On Tue, 25 Jun 2013, Dov Sadan wrote:

This ?Computing Initial Surface Statistics

      -face       loglikelihood: -8.0702  (-4.0351)
      -vertex     loglikelihood: -6.6450  (-3.3225)
      -normal dot loglikelihood: -3.4961  (-3.4961)
      -quad curv  loglikelihood: -6.1619  (-3.0810)
      Total Loglikelihood : -24.3732



On Tue, Jun 25, 2013 at 10:34 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu>
wrote:
      No, not that. That is the density reestimation. Later on it
      should write out the log posterior 



On Jun 25, 2013, at 3:32 PM, Dov Sadan <dov.sadan.19@gmail.com> wrote:

      Dear Buche,
Thank you very much for your quick reply.

Do you mean those lines: (from recon-all. log)
==================
.
.
.
gca peak = 0.27536 (62)
mri peak = 0.11940 (97)
Right_Hippocampus (53): linear fit = 1.55 x + 0.0 (325 voxels,
overlap=0.000)
Right_Hippocampus (53): linear fit = 1.55 x + 0.0 (325 voxels,
peak = 96), gca=96.1
.
.

===================

If this is what you meant, can you shed some light on this log.
What "gca peak" /  "mri peak"  means? And what the number
insight the parentheses represent ?

Thanks in advance,
Assaf




On Tue, Jun 25, 2013 at 9:49 PM, Bruce Fischl
<fischl@nmr.mgh.harvard.edu> wrote:
      Hi Dov

      I think it writes out the log posterior at each
      iteration of the aseg (mri_ca_label)

      cheers
      Bruce
      On Tue, 25 Jun 2013, Dov Sadan wrote:

            Hi there,

            I'm wondering if there's any parameter
            which can assess the correctness of
            the freesurfer's segmentation (
            the aparc.a2009s+aseg.mgz file).

            --> Assuming the freesurfer's algorithm
            fitting/minimizing an objective
            function, right ?  If so, where I can
            find the value of this
            fitted function  ? (or RMS value ?)

            Thanks in advance,
            Dov




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