Child Imaging Research and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu
skype: srishti.goel12
On Wed, Nov 14, 2018 at 2:50 PM srishti goel <23srishtig...@gmail.com>
wrote:
> Hi Douglas,
>
> Thank you so much for your respons
Child Imaging Research and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu
skype: srishti.goel12
On Wed, Nov 7, 2018 at 9:24 AM Greve, Douglas N.,Ph.D. <
dgr...@mgh.harvard.edu> wrote:
>
>
> On 10/24/2018 09:45 PM, sri
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Hello,
I am trying to perform a paired analysis for a data set that has subjects'
who belong to either group1 or group2 and have data at time point1 (tp1)
and time point2 (tp2). I am following all the steps on the wiki but I want
to clarify if the
, 2018 at 12:46 PM Greve, Douglas N.,Ph.D. <
dgr...@mgh.harvard.edu> wrote:
> I can't remember that far back:), but it would not surprise me if they
> were not there in 5.3. You can always use the v6 mri_glmfit with 5.3 data.
>
> On 09/24/2018 12:39 PM, srishti goel wrote:
> &
: srishti.goel12
On Mon, Sep 24, 2018 at 12:36 PM Greve, Douglas N.,Ph.D. <
dgr...@mgh.harvard.edu> wrote:
> What version of FS are you using? The pcc may only be in the v6.
>
> On 09/24/2018 12:10 PM, srishti goel wrote:
> >
> > External Email - Use Cauti
External Email - Use Caution
Hi,
I am running analysis to compare group difference in thickness between two
groups. I followed all the steps outlined on the wiki:
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis.
Everything seemed to work fine except I didn't
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu
skype: srishti.goel12
On Mon, Jul 16, 2018 at 2:01 PM, Douglas N. Greve
wrote:
> The values are -log10(p). So if you want to view voxels with p<.01, then
> set the threshold = 2
>
>
>
> On 07/05/2
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Hello,
I am trying to decide what fthresh values should I be using for viewing my
mkda maps on surface. Where could I find some theoretical explanation of
how to figure that out the freesurfer wiki? I have read a lot of different
things on the archive
PM, Ruopeng Wang
wrote:
> After you load the label or overlay you should see it on the left panel.
>
> Best,
> Ruopeng
>
>
> On Jul 5, 2018, at 12:54 PM, srishti goel <23srishtig...@gmail.com> wrote:
>
> External Email - Use Caution
>
> Hi Rupoe
eeview
>
> Best,
> Ruopeng
>
>
> On Jun 9, 2018, at 11:04 AM, srishti goel <23srishtig...@gmail.com> wrote:
>
> External Email - Use Caution
>
> Hi Ruopeng,
>
> I just wanted to check and see if there is any update about adding the
> option of changing
fs -ov clustermap.nii.gz -fminmax .01 3
> you may have to adjust the thresholds (fminmax)
>
>
> On 6/26/18 10:43 PM, srishti goel wrote:
>
> External Email - Use Caution
> Hello Bruce,
>
> You had mentioned about loading the volumetric maps with the surface to
> chec
, Bruce Fischl
wrote:
> Hi Srishti
>
> you should be able to load the volumetric maps with the surfaces and make
> sure that your clusters are contained within the surface.
>
> cheers
> Bruce
>
> On Mon, 25 Jun 2018, srishti goel wrote:
>
>
>> External Emai
tric maps with the surfaces and make
> sure that your clusters are contained within the surface.
>
> cheers
> Bruce
>
> On Mon, 25 Jun 2018, srishti goel wrote:
>
>
>> External Email - Use Caution
>>
>> They are separate clusters not the same clusters but w
uld be included. But dACC and insula are not close to each other.
> How can there be a cluster that spans both?
>
> On 6/23/18 7:54 PM, srishti goel wrote:
>
> External Email - Use Caution
> Hello,
>
> I am using mri_vol2surf to project my volume maps on to the surfac
External Email - Use Caution
Hello,
I am using mri_vol2surf to project my volume maps on to the surface. There
is a dACC/insula cluster visible in my volume maps that doesn't show up
when I project it on the surface.
Is that because dACC/insula is not included in surfaces on
and Life Experiences Lab
University of North Carolina at Chapel Hill
email (W): srish...@email.unc.edu
skype: srishti.goel12
On Tue, May 29, 2018 at 2:40 PM, srishti goel <23srishtig...@gmail.com>
wrote:
> Thanks a lot Ruopeng, really appreciate it.
>
> Best,
> Srishti
>
>
: srishti.goel12
On Tue, May 29, 2018 at 10:40 AM, Ruopeng Wang
wrote:
> It will be added very soon. I'll let you know when it is ready.
>
> Best,
> Ruopeng
>
> On 05/28/2018 05:35 PM, srishti goel wrote:
>
> Hi Ruopeng,
>
> Thank you so much! That option will be super help
openg
>
>
> On May 28, 2018, at 9:18 AM, srishti goel <23srishtig...@gmail.com> wrote:
>
> Hello,
>
> I did use Freeview but I think using either TkSurfer or Freeview won't
> matter because what I am trying to figure out is what the fthresh value
> means
run tksurferfv with the same args as
> tksurfer
>
> On 5/22/18 3:49 PM, srishti goel wrote:
>
>
> Hello,
>
> I am trying to view network based maps produced from a meta-analysis using
> neuroelf on the surface in freesurfer. The meta-analytic maps are
> thresholded ma
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Hello,
I am trying to view network based maps produced from a meta-analysis using
neuroelf on the surface in freesurfer. The meta-analytic maps are
thresholded maps that represent the proportion of contrasts that activated
at each voxel
I projected
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Hello Freesurfers,
I have a network based map that has been produced from a meta analysis
using NeuroElf on the standard colins template. I want to project this map
on the surface of an MNI template.
Does anyone have thoughts about how that could be
Hi ,
I am facing an issue when I try to compare two network-based maps, one of
which has been registered on a surface while the other one has not. If
anyone has tried doing something similar and has any thoughts about it
please share your suggestions, I highly appreciate it.
I have two sets of
How do you usually view the results? In FSL or SPM? Do you view
> them on an anatomical image?
>
>
> On 04/12/2018 09:03 AM, srishti goel wrote:
> > Hi Douglas,
> >
> > The negative_allsocial_proportion.nii file has actually been converted
> > from a vmp file - 'nega
ou
> are trying to register
> Cheers
> Bruce
>
> On Apr 8, 2018, at 2:55 PM, srishti goel <23srishtig...@gmail.com> wrote:
>
> Hi Bruce,
>
> Thanks so much for pointing that out, I totally missed that part.
>
> Also, the registration definitely isn't appropria
tkregisterfv --mov negative_allsocial_proportion.nii --regheader --s
> mni152_subject --surfs --reg reg.deleteme.dat
>
>
> On 04/05/2018 08:34 AM, srishti goel wrote:
> > Hi,
> >
> > I am trying to compare my volume maps
> > (negative_allsocial_proportion.nii) to someone else's
>
ce
>
>
> On Thu, 5 Apr 2018, srishti goel wrote:
>
> Should I re-run the recon-all after running the last command from
>> recon-all.cmd?
>>
>> Best,
>> Srishti
>> Social/Clinical Research Specialist
>> Child Imaging Research and Life Experiences Lab
>&
, 2018 at 12:31 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
wrote:
> Hi Srishti
>
> if you look in the subject's scripts dir there should be a file named
> "recon-all.cmd". Try rerunning the last command in it (probably from the
> mri dir)
>
>
> cheers
&g
il again?
>
>
> On Thu, 5 Apr 2018, srishti goel wrote:
>
> Hi Bruce,
>>
>> The machine definitely hasn't run out of memory. Here is the memory usage
>> from recon-all.log
>>
>> total usedfree
>> shar
fis...@nmr.mgh.harvard.edu>
wrote:
> Hi Srishti
>
> are you sure that your machine didn't just run out of memory? The
> recon-all.log file includes the amount of free (and total) memory at the
> time the process was started.
>
> cheers
> Bruce
>
>
> On Thu, 5 Apr 2018, srishti go
Hi,
I have been trying to edit structural brains and very few times I would get
the following error while running recon-all -s subjID
white matter peak found at 110
cannot allocate memory
Upon looking at the archive, there was only one similar issue and it was
recommend to check mri_info as the
Hi,
I am trying to compare my volume maps (negative_allsocial_proportion.nii)
to someone else's (SN_like_cortical_lh.nii.gz) who have it on a surface
(mni152_subject). So I used the steps for mri_vol2surf command as follows:
Commands:
mri_vol2surf --src negative_allsocial_proportion.nii
ultimodal integration tutorial
>
> https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultiModal_freeview
>
> On 3/6/18 6:36 PM, srishti goel wrote:
>
> I am sorry but that is what I am unsure about it. I don't know how to
> obtain a registration matrix or which registration ma
): srish...@email.unc.edu
skype: srishti.goel12
On Mon, Mar 5, 2018 at 3:24 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>
wrote:
> Why did you remove the registration file? --srcreg below
>
>
> On 02/28/2018 04:13 PM, srishti goel wrote:
> > Hello,
> >
> > Tha
ed to add --trgsubject fsaverage to your mri_vol2surf command line
>
> On 2/27/18 12:23 PM, srishti goel wrote:
>
> Hello,
>
> We are trying to project a volume map onto a surface. Our network based
> volume map is a .vmp file and our surface is a nifti file. We were able to
> convert t
Hello,
We are trying to project a volume map onto a surface. Our network based
volume map is a .vmp file and our surface is a nifti file. We were able to
convert the volume maps from .vmp to nifti.
Our volume map is: negative_allsocial_proportion.nii
Our surface is: SN_like_cortical_lh.nii
The
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