Hi all,
I could really use some help with this
I am trying to convert a group cluster to GIFTI (.gii) format. I just need some help running mris_convert.
The example for a label to GIFTI is
mris_convert --label lh.V1.label V1 lh.white lh.V1.label.gii
I'm trying to figure out what is required here. I understand I put in the label after label and the output at the end, but in this example I am not sure what the V1 and lh.white are for.
Thanks, Tara
Does this not work for you?
cd $SUBJECTS_DIR/subject/label mris_convert --label lh.V1.label V1 ../surf/lh.white lh.V1.label.gii
On 08/07/2014 12:05 PM, Tara Miskovich wrote:
Hi all,
I could really use some help with this
I am trying to convert a group cluster to GIFTI (.gii) format. I just need some help running mris_convert.
The example for a label to GIFTI is
mris_convert --label lh.V1.label V1 lh.white lh.V1.label.gii
I'm trying to figure out what is required here. I understand I put in the label after label and the output at the end, but in this example I am not sure what the V1 and lh.white are for.
Thanks, Tara
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Doug thank you for the response. I just wasn't sure what was required here. Specifically why we need to call on the white matter surface. And what the second V1 would be for.
Thank you, Tara
On Thu, Aug 7, 2014 at 11:05 AM, Tara Miskovich miskovi2@uwm.edu wrote:
Hi all,
I could really use some help with this
I am trying to convert a group cluster to GIFTI (.gii) format. I just need some help running mris_convert.
The example for a label to GIFTI is
mris_convert --label lh.V1.label V1 lh.white lh.V1.label.gii
I'm trying to figure out what is required here. I understand I put in the label after label and the output at the end, but in this example I am not sure what the V1 and lh.white are for.
Thanks, Tara
Hi Tara the second "V1" is for looking up the name of the label in FreeSurferColorLUT.txt. If you were converting to an annotation for example we would embed the proper colors into it.
cheers Bruce
On Thu, 7 Aug 2014, Tara Miskovich wrote:
Hi Doug thank you for the response. I just wasn't sure what was required here. Specifically why we need to call on the white matter surface. And what the second V1 would be for. Thank you, Tara [cleardot.gif]
On Thu, Aug 7, 2014 at 11:05 AM, Tara Miskovich miskovi2@uwm.edu wrote: Hi all,
I could really use some help with this
I am trying to convert a group cluster to GIFTI (.gii) format. I just need some help running mris_convert.
The example for a label to GIFTI is
mris_convert --label lh.V1.label V1 lh.white lh.V1.label.gii
I'm trying to figure out what is required here. I understand I put in the label after label and the output at the end, but in this example I am not sure what the V1 and lh.white are for.
Thanks, Tara
p.s. oh, and lh.white is so that we have a surface. The label is just a (small) set of points on the surface, and doesn't contain other information needed to generate a surface (like connectivity) On Thu, 7 Aug 2014, Tara Miskovich wrote:
Hi Doug thank you for the response. I just wasn't sure what was required here. Specifically why we need to call on the white matter surface. And what the second V1 would be for. Thank you, Tara [cleardot.gif]
On Thu, Aug 7, 2014 at 11:05 AM, Tara Miskovich miskovi2@uwm.edu wrote: Hi all,
I could really use some help with this
I am trying to convert a group cluster to GIFTI (.gii) format. I just need some help running mris_convert.
The example for a label to GIFTI is
mris_convert --label lh.V1.label V1 lh.white lh.V1.label.gii
I'm trying to figure out what is required here. I understand I put in the label after label and the output at the end, but in this example I am not sure what the V1 and lh.white are for.
Thanks, Tara
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N Greve -
Tara Miskovich