.mgh.harvard.edu] On Behalf Of Bruce Fischl
> Sent: Wednesday, March 04, 2015 4:42 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> you need it to be:
>
> % sclv_set_current_threshold_from_percentile .7 .8 .9
>
> or someth
h.harvard.edu
> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
> [fis...@nmr.mgh.harvard.edu]
> Sent: Wednesday, March 04, 2015 4:07 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> try:
>
> sclv_set_current_threshold_from_
rvard.edu] on behalf of Bruce Fischl
> [fis...@nmr.mgh.harvard.edu]
> Sent: Wednesday, March 04, 2015 4:07 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> try:
>
> sclv_set_current_threshold_from_percentile
>
>
> cheers
&
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
[fis...@nmr.mgh.harvard.edu]
Sent: Wednesday, March 04, 2015 4:07 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer overlay threshold
try
t;
> Any thoughts would be greatly appreciated!
>
> Thank you.
>
> Gabriella
>
>
>
>
>
> From: Z K [zkauf...@nmr.mgh.harvard.edu]
> Sent: Wednesday, March 04, 2015 2:32 PM
> To: Hirsch, Gabriella
> Subject: Re: [Freesurfer] tksu
___
> From: Z K [zkauf...@nmr.mgh.harvard.edu]
> Sent: Wednesday, March 04, 2015 1:49 PM
> To: Hirsch, Gabriella
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> You'll need to make it executable. Type the following commands in the
> terminal window:
>
> $&
ednesday, March 04, 2015 11:53 AM
To: Z K
Cc: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer overlay threshold
oh, thanks Zeke for catching that
Bruce
On Wed, 4 Mar 2015, Z K wrote:
> Hi Gabriela,
>
> You might have a typo. Its "set_current_t
>
>> > Do I have to add values to the tcl command as well?
>> >
>> > From: freesurfer-boun...@nmr.mgh.harvard.edu
>> > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
>> > [fis...@nmr
eesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
>> [fis...@nmr.mgh.harvard.edu]
>> Sent: Wednesday, March 04, 2015 10:26 AM
>> To: Freesurfer support list
>> Subject: Re: [Freesurfer] tksurfer overlay threshold
>>
>> Hi Gabriela
>>
>
f of Bruce Fischl
[fis...@nmr.mgh.harvard.edu]
Sent: Wednesday, March 04, 2015 11:07 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer overlay threshold
you would need to include parameters, but that doesn't explain your error.
What version of tksurfer are you using? It is proba
d.edu
> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
> [fis...@nmr.mgh.harvard.edu]
> Sent: Wednesday, March 04, 2015 10:26 AM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> Hi Gabriela
>
> they set the t
nd as well?
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
[fis...@nmr.mgh.harvard.edu]
Sent: Wednesday, March 04, 2015 10:26 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer overlay threshold
Hi Gabriela
th
esurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
> Sent: Tuesday, March 03, 2015 5:48 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
>
> I'm not sure what yo
...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
> Sent: Tuesday, March 03, 2015 7:05 PM
> To: Freesurfer support list
> Subject: Re: [Freesurfer] tksurfer overlay threshold
>
> you can use the command:
>
> set_current_threshold_from_p
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
Sent: Tuesday, March 03, 2015 7:05 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] tksurfer overlay threshold
you can use the command:
set_current_threshold_from_percentil
-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Tuesday, March 03, 2015 5:48 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] tksurfer overlay threshold
I'm not sure what you mean. optimal in what sense?
doug
On 03/03/201
you can use the command:
set_current_threshold_from_percentile(min, mid,max)
which will compute the thresholds based on the histogram of values
On Tue, 3 Mar 2015, Douglas N Greve wrote:
>
> I'm not sure what you mean. optimal in what sense?
> doug
>
> On 03/03/2015 03:21 PM, Hirsch, Gabriella
I'm not sure what you mean. optimal in what sense?
doug
On 03/03/2015 03:21 PM, Hirsch, Gabriella wrote:
> Hi Fs experts,
>
> I had a quick question about settings thresholds of surface overlays
> in Tksurfer. I am currently generating images of the thickness, volume
> and surface area of indiv
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