On Behalf Of Alexopoulos,
Dimitrios
Sent: Friday, May 25, 2018 12:47 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] -qcache in recon-all commnd
External Email - Use Caution
Any further comments on the correct command to run after making manual edits.
Specifically, should the '-hippocampal
er support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] -qcache in recon-all commnd
External Email - Use Caution
Any further advice on whether to include '-hippocampal-subfields-T1' flag in
the rerun after manual edits?
Jim
"The materials in this emai
al Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
Sent: Tuesday, May 22, 2018 11:35 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
Sorry, I don't know. I doubt
freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> > Sent: Monday, May 21, 2018 4:52 PM
> > To: freesurfer@nmr.mgh.harvard.edu
> > Subject: Re: [Freesurfer] -qcache in recon-all commnd
> >
> > You can run this:
> > recon-all -s -all -hires
&g
rn email."
>
> -Original Message-
> From: freesurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Monday, May 21, 2018 4:52 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer]
18 4:52 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
You can run this:
recon-all -s -all -hires
but it might run more things than you need (no harm, just computer time).
Depending on what you have edited, you may be able to use one of the -autorecon
flag
mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Monday, May 21, 2018 3:40 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in recon-all commnd
>
>
> If you have editeid all your subjects and re-
s N. Greve
Sent: Monday, May 21, 2018 3:40 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
If you have editeid all your subjects and re-run (with -all or appropirate
-auto-reconX flag), then you can run -qcache without those flags
On 05/21/201
gt;
>
> -Original Message-
> From: freesurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Monday, May 21, 2018 3:28 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in r
r via
telephone or return email."
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
Sent: Monday, May 21, 2018 3:28 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-
oun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Monday, May 21, 2018 3:16 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in recon-all commnd
>
> Yes, run the same optional flag. When you run -qcache, do not include -all
>
>
> On 05/2
al Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
Sent: Monday, May 21, 2018 3:16 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
Yes, run the same optional flag. Wh
> -Original Message-
> From: freesurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
> Sent: Tuesday, May 08, 2018 11:19 AM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in r
> Sent: Thursday, April 12, 2018 1:01 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in recon-all commnd
>
> Right. And you'd need to redo it after all manual edits
>
>
> On 04/12/2018 11:06 AM, Alexopoulos, Dimitrios wrote:
>> Thanks. We
PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] -qcache in recon-all commnd
>
> Right. And you'd need to redo it after all manual edits
>
>
> On 04/12/2018 11:06 AM, Alexopoulos, Dimitrios wrote:
>> Thanks. We are starting an analysis of a pediatric cohort
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N. Greve
Sent: Thursday, April 12, 2018 1:01 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
Right. And you'd need to redo it after all manual edits
On 04/12/2018 11:06 AM, Alexopoulos
immediately notify the sender via telephone or return email.”
>
> *From:*freesurfer-boun...@nmr.mgh.harvard.edu
> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] *On Behalf Of *Douglas
> Greve
> *Sent:* Wednesday, April 11, 2018 10:29 PM
> *To:* freesurfer@nmr.m
Wednesday, April 11, 2018 10:29 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] -qcache in recon-all commnd
It is not. -qcache is a preprocessing step prior to doing group analysis with
QDEC. If you use it, you should only do so after you have finished all the
individual analysis (
It is not. -qcache is a preprocessing step prior to doing group analysis
with QDEC. If you use it, you should only do so after you have finished
all the individual analysis (eg, manual edits)
On 4/11/18 10:02 PM, Alexopoulos, Dimitrios wrote:
Is it recommended to use the -qcache flag in the
Is it recommended to use the -qcache flag in the basic recon-all -all command?
What does it do and what are the advantage of using it?
Jim
The materials in this message are private and may contain Protected Healthcare
Information or other information of a
20 matches
Mail list logo
