sychology of Ingestive Behavior Lab
University of North Carolina Chapel Hill
From: Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>>
Sent: Sunday, January 8, 2017 1:09 PM
To: Shearrer, Grace
Cc: Jennifer Elam; NEUROSCIENCE tim
Subject: Re: [
<glass...@wustl.edu>
Sent: Sunday, January 8, 2017 1:09 PM
To: Shearrer, Grace
Cc: Jennifer Elam; NEUROSCIENCE tim
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Hi Grace,
Have a look at wb_command -cifti-help
Matt.
From: "Shearrer, Grace" <grac...@email.unc.edu<
om:* Timothy Coalson <tsc...@mst.edu>
> *Sent:* Wednesday, January 4, 2017 8:43 PM
>
> *To:* Shearrer, Grace
> *Cc:* Glasser, Matthew; Elam, Jennifer; aus...@gmail.com;
> HCP-Users@humanconnectome.org
> *Subject:* Re: [HCP-Users] Creating Group Average Resting State fMRI
>
> No
atthew; Elam, Jennifer; aus...@gmail.com;
HCP-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Not quite, you still need to do -cifti-merge to concatenate across subjects to
get one matrix that reflects data from all subjects.
Per subject, with a litt
ctome.org>"
<HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>>,
"aus...@gmail.com<mailto:aus...@gmail.com>"
<aus...@gmail.com<mailto:aus...@gmail.com>>
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Not quite, you
humanconnectome.org<mailto:HCP-Users@humanconnectome.org>>,
"aus...@gmail.com<mailto:aus...@gmail.com>"
<aus...@gmail.com<mailto:aus...@gmail.com>>
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Not quite, you still need to do -cifti-merg
asser, Matthew; Elam, Jennifer; aus...@gmail.com;
> HCP-Users@humanconnectome.org
>
> *Subject:* Re: [HCP-Users] Creating Group Average Resting State fMRI
>
> Are you planning to concatenate the timeseries across all subjects? If
> so, I would suggest parcellating in each subj
nesday, January 4, 2017 7:00 PM
To: Shearrer, Grace
Cc: Glasser, Matthew; Elam, Jennifer; aus...@gmail.com;
HCP-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Are you planning to concatenate the timeseries across all subjects? If so, I
would suggest parcel
m, Jennifer; aus...@gmail.com;
> HCP-Users@humanconnectome.org
>
> *Subject:* Re: [HCP-Users] Creating Group Average Resting State fMRI
>
> I would insert the parcellation between steps 5 and 6. The result if you
> use the file I suggested below will be a 360 X 360 cortical area
,
"HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>"
<HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>>
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Hi Matt, thanks so much for all your work on HCP a
-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
You will need to parcellate the data first using wb_command -cifti-parcellate.
A parcellation is available here:
https://balsa.wustl.edu/file/show/3VLx
Peace,
Matt.
From:
<hcp-u
lt;mailto:aus...@gmail.com>>,
"HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>"
<HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>>
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Hi Grace,
This is a grayord
day, January 4, 2017 2:16:48 PM
To: Elam, Jennifer; aus...@gmail.com; HCP-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
?Hi Jenn, oops the User list verification was going to my junk email. I just
signed up though. I did see the wiki and it was h
, Jennifer <e...@wustl.edu>
Sent: Wednesday, January 4, 2017 4:57 PM
To: Shearrer, Grace; aus...@gmail.com; HCP-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Hi Grace,
You might also want to check out the instructions for creating individual and
Grace
<grac...@email.unc.edu>
Sent: Wednesday, January 4, 2017 1:24:49 PM
To: aus...@gmail.com; HCP-Users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Hi Dr. Bari,
thank you so much for script this is very helpful. I just want to check that I
Hi Dr. Bari,
thank you so much for script this is very helpful. I just want to check that I
understand. I would use your script to get the mean time series, standard
deviation, and then demean the data. Then I would use a command like:
wb_command -cifit-merge
to then merge all my demeaned
). There will be a better way in the future.
Peace,
Matt.
From: Timothy Coalson tsc...@mst.edu
Date: Monday, May 19, 2014 at 10:48 PM
To: Ausaf Bari aus...@gmail.com
Cc: hcp-users@humanconnectome.org hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State
tsc...@mst.edu
Date: Monday, May 19, 2014 at 10:48 PM
To: Ausaf Bari aus...@gmail.com
Cc: hcp-users@humanconnectome.org hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Averaging together timepoints does not make sense for resting state data
@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Averaging together timepoints does not make sense for resting state
data, it does not use stimuli, so there is no temporal correspondence
between runs or across subjects. You should do the correlation before any
-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Should you also normalize so that the standard deviations of each
timeseries match?
Tim
On Tue, May 20, 2014 at 12:24 PM, Stephen Smith st...@fmrib.ox.ac.ukwrote:
Hi - One important point
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Averaging together timepoints does not make sense for resting state
data, it does not use stimuli, so there is no temporal correspondence
between runs or across subjects. You should do the correlation before any
averaging
aus...@gmail.com, hcp-users@humanconnectome.org
hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Should you also normalize so that the standard deviations of each
timeseries match?
Tim
On Tue, May 20, 2014 at 12:24 PM, Stephen Smith
@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
On a similar note, I also want to find the group average of a particular task fMRI such as the emotion task fMRI. I found a .dscalar.nii CIFTI file for each task for each subject.
Can I average the .dscalar.nii
: Tuesday, May 20, 2014 5:56 PM
To: Matt Glasser glass...@wusm.wustl.edu
Cc: hcp-users@humanconnectome.org hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
On a similar note, I also want to find the group average of a
particular task fMRI
: Timothy Coalson tsc...@mst.edu
Date: Monday, May 19, 2014 at 10:48 PM
To: Ausaf Bari aus...@gmail.com
Cc: hcp-users@humanconnectome.org hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Creating Group Average Resting State fMRI
Averaging together timepoints does not make sense for resting
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