really? Hmmm, that sounds like a bug. It should be:
labels --> indices of the most likely label at each voxel
priors --> the probability that that label occurs at that voxel
means --> the mean intensity of the most likely label
you can also use -nth $frame instead of #$frame
On Thu, 28
Jan
2010,
Guang Zeng wrote:
>
> Hello, Bruce,
>
> Thanks a lot for your quick reply?
> Could I ask what is the difference between labels.mgz and priors.mgz (or
> atlas.gca#1 and atlas.gca#2).
> I load both of them in tkmedit, move the mouse in the image, they all gave me
> the same value.
>
>
> Thanks!
> Guang
>
>> Date: Thu, 28 Jan 2010 16:51:56 -0500
>> From: fis...@nmr.mgh.harvard.edu
>> To: freesurfer...@hotmail.com
>> CC: freesurfer@nmr.mgh.harvard.edu
>> Subject: RE: [Freesurfer] how to view .gca file
>>
>> Hi Guang,
>>
>> it should be:
>>
>> mri_convert atlas.gca#0 means.mgz
>> mri_convert atlas.gca#1 labels.mgz
>> mri_convert atlas.gca#2 priors.mgz
>>
>> cheers,
>> Bruce
>>
>> p.s. sorry, I don't think the gca format is documented anywhere, but you
>> are welcome to the code if you want
>>
>> On Thu, 28 Jan 2010, Guang Zeng wrote:
>>
>>>
>>> Hello, Bruce,
>>>
>>> Thanks for your reply. I still have two questions,
>>>
>>> 1. Does these gca files also include 9 arrays such as those template files
>>> saved into .tiff file.
>>> Is there any place in the WIKI explain the format of the gca files?
>>>
>>> What is the difference between gca#0 and gca#1?
>>>
>>> 2. I tried the command line you suggested,
>>>
>>> mri_convert atlas.gca#1 priors.mgz labels.mgz
>>>
>>> It gave me an error message:
>>>
>>> mri_convert: extra argument ("labels.mgz")
>>>
>>> type mri_convert -u for usage
>>>
>>> Thanks a lot!
>>> Guang
>>>
>>>> Date: Thu, 29 Oct 2009 07:21:42 -0400
>>>> From: fis...@nmr.mgh.harvard.edu
>>>> To: freesurfer...@hotmail.com
>>>> CC: freesurfer@nmr.mgh.harvard.edu
>>>> Subject: Re: [Freesurfer] (no subject)
>>>>
>>>> you can load it in tkmedit from the file menu and probe it one voxel at a
>>>> time, or you can use
>>>>
>>>> mri_convert atlas.gca#0 means.mgz
>>>>
>>>> and
>>>>
>>>> mri_convert atlas.gca#1 priors.mgz labels.mgz
>>>>
>>>> to look at the most likely label and it's mean
>>>>
>>>> cheers,
>>>> Bruce
>>>>
>>>> On Thu, 29 Oct 2009, Guang Zeng
>>>> wrote:
>>>>
>>>>>
>>>>> Hi, there,
>>>>>
>>>>> I want to know how the FS GCA atlas looks like, is there a way to load
>>>>> the FS GCA Atlas and view it using tkmedit or matlab?
>>>>>
>>>>> Is it possible to replace FS Atlas with our own Atlas and use it for
>>>>> analysis?
>>>>>
>>>>> Thanks a lot!
>>>>> Guang
>>>>>
>>>>> _________________________________________________________________
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