Douglas,
A little more elaboration would help. What is "it" and what are "them"?
-Tashrif
.
Right, I understand the rule about the scripts.
However, my original question was about the subfields -hippocampal-subfields-T1/T2/T1T2
Again, can they be run with any of the autorecons separately? The example shown herehttps://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfields integrates the subfileds with recon-all only but do no show combination with any autorecon commands.
-Tashrif . ________________________________ From: Billah, Tashrif Sent: Friday, April 17, 2020 1:52 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Which autorecon uses -hippocampal-subfields flags?
Douglas,
A little more elaboration would help. What is "it" and what are "them"?
-Tashrif
.
I don't understand the question. To run recon-all through to the end implies that you have run all the -autorecons
On 4/17/2020 2:53 PM, Billah, Tashrif wrote:
Right, I understand the rule about the scripts.
However, my original question was about the subfields -hippocampal-subfields-T1/T2/T1T2 Again, can they be run with any of the autorecons separately? The example shown here https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfields integrates the subfileds with recon-all only but do no show combination with any autorecon commands.
-Tashrif .
*From:* Billah, Tashrif *Sent:* Friday, April 17, 2020 1:52 PM *To:* freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Which autorecon uses -hippocampal-subfields flags? Douglas,
A little more elaboration would help. What is "it" and what are "them"?
-Tashrif
.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Douglas,
Let's try with an example. See the two wayshttps://surfer.nmr.mgh.harvard.edu/fswiki/recon-all T2 image can be integrated with recon-all
Altogether:
recon-all -subject subjectname -i /path/to/input_volume -T2 /path/to/T2_volume -T2pial -all
autorecon3 only:
recon-all -subject subjectname -T2 /path/to/T2_volume -T2pial -autorecon3
Similar to the former, -hippocampal-subfields-T1https://surfer.nmr.mgh.harvard.edu/fswiki/HippocampalSubfields integrated with recon-all:
recon-all -all -s bert -hippocampal-subfields-T1
Now the question, compared to the latter, which autorecon[1/2/3] would accept -hippocampal-subfields-T1?
Does it make sense now?
-Tashrif .
Hello Douglas,
Waiting to hear back from you on my question
Thanks, Tashrif
sorry, what question? Please include previous emails
On 4/21/2020 11:43 PM, Billah, Tashrif wrote:
Hello Douglas,
Waiting to hear back from you on my question
Thanks, Tashrif
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Billah, Tashrif -
Douglas N. Greve