Re: [HCP-Users] run-level (level 1） functional MRI data

[Glasser, Matthew]

I’m not sure if that is a great idea as one run is RL and the other LR and I 
don’t think they were really intended to be used that way from a task design 
perspective either.  Perhaps instead you could make use of the test-retest 
dataset which has 45 subjects completely rescanned through the protocol?

Peace,
Matt.

From: Jiang Jian <jiangjian...@163.com<mailto:jiangjian...@163.com>>
Date: Wednesday, May 24, 2017 at 8:34 PM
To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>
Cc: "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>>, 
"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re:Re: [HCP-Users] run-level (level 1） functional MRI data

Hi,

I mean run level by saying level 1 and I want it because we are considering 
using one run for analysis and other run for validation.
Maybe we should generate level 1 processed data using your scripts if  we 
really need it.

Thanks!!

Jiang Jian



At 2017-05-24 23:50:20, "Glasser, Matthew" 
<glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote:
By level 1 do you mean subject wise?

Peace,

Matt.

From: 
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of Jiang Jian <jiangjian...@163.com<mailto:jiangjian...@163.com>>
Date: Tuesday, May 23, 2017 at 9:11 PM
To: "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>>
Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] run-level (level 1） functional MRI data

Hi Michael,

I am sorry I didn't put it clearly. I want "level 1 " results processed through 
the task model (GLM)? Are they in file
 
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}__{L,R}.native.func.gii?

Thanks,
Jiang Jian





At 2017-05-23 22:31:34, "Harms, Michael" 
<mha...@wustl.edu<mailto:mha...@wustl.edu>> wrote:

Hi,
Do you want the “Level 1” results processed through the task model (GLM)?

Or, do you just want the “minimally preprocessed” data that entered into the 
task analysis scripts?  These are available in:
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}_Atlas_MSMAll.dtseries.nii
 for the “MSMAll” registered version.

cheers,
-MH

--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu<mailto:mha...@wustl.edu>

From: 
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of Jiang Jian <jiangjian...@163.com<mailto:jiangjian...@163.com>>
Date: Monday, May 22, 2017 at 9:26 PM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] run-level (level 1） functional MRI data

Dear Professors,

I want to use run-level data to do some analysis, and I wonder would  file 
named *.native.fun.gii (e.g., tfMRI_WM_LR.L.natiive.func.gii) contains 
run-level functional data?


Best,

Jiang Jian

-
Graduate Student
Beijing Normal University, 100875





___
HCP-Users mailing list
HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>
http://lists.humanconnectome.org/mailman/listinfo/hcp-users


The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.





___
HCP-Users mailing list
HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>
http://lists.humanconnectome.org/mailman/listinfo/hcp-users





___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

Re: [HCP-Users] run-level (level 1） functional MRI data

[Glasser, Matthew]

By level 1 do you mean subject wise?

Peace,

Matt.

From: 
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of Jiang Jian <jiangjian...@163.com<mailto:jiangjian...@163.com>>
Date: Tuesday, May 23, 2017 at 9:11 PM
To: "Harms, Michael" <mha...@wustl.edu<mailto:mha...@wustl.edu>>
Cc: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] run-level (level 1） functional MRI data

Hi Michael,

I am sorry I didn't put it clearly. I want "level 1 " results processed through 
the task model (GLM)? Are they in file
 
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}__{L,R}.native.func.gii?

Thanks,
Jiang Jian





At 2017-05-23 22:31:34, "Harms, Michael" 
<mha...@wustl.edu<mailto:mha...@wustl.edu>> wrote:

Hi,
Do you want the “Level 1” results processed through the task model (GLM)?

Or, do you just want the “minimally preprocessed” data that entered into the 
task analysis scripts?  These are available in:
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}_Atlas_MSMAll.dtseries.nii
 for the “MSMAll” registered version.

cheers,
-MH

--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu<mailto:mha...@wustl.edu>

From: 
<hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of Jiang Jian <jiangjian...@163.com<mailto:jiangjian...@163.com>>
Date: Monday, May 22, 2017 at 9:26 PM
To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] run-level (level 1） functional MRI data

Dear Professors,

I want to use run-level data to do some analysis, and I wonder would  file 
named *.native.fun.gii (e.g., tfMRI_WM_LR.L.natiive.func.gii) contains 
run-level functional data?


Best,

Jiang Jian

-
Graduate Student
Beijing Normal University, 100875





___
HCP-Users mailing list
HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>
http://lists.humanconnectome.org/mailman/listinfo/hcp-users


The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.





___
HCP-Users mailing list
HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

Re: [HCP-Users] run-level (level 1） functional MRI data

[Jiang Jian]

Hi Michael,


I am sorry I didn't put it clearly. I want "level 1 " results processed through 
the task model (GLM)? Are they in file 
 
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}__{L,R}.native.func.gii?


Thanks,
Jiang Jian






At 2017-05-23 22:31:34, "Harms, Michael"  wrote:



Hi,
Do you want the “Level 1” results processed through the task model (GLM)?


Or, do you just want the “minimally preprocessed” data that entered into the 
task analysis scripts?  These are available in:
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}_Atlas_MSMAll.dtseries.nii
 for the “MSMAll” registered version.


cheers,
-MH


-- 
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu


From:  on behalf of Jiang Jian 

Date: Monday, May 22, 2017 at 9:26 PM
To: "hcp-users@humanconnectome.org" 
Subject: [HCP-Users] run-level (level 1） functional MRI data



Dear Professors,


I want to use run-level data to do some analysis, and I wonder would  file 
named *.native.fun.gii (e.g., tfMRI_WM_LR.L.natiive.func.gii) contains 
run-level functional data?




Best, 


Jiang Jian 


-
Graduate Student
Beijing Normal University, 100875




 

___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

 

The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.
___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

Re: [HCP-Users] run-level (level 1） functional MRI data

[Harms, Michael]

No.  Those native.func.gii files are not what you want.

We didn’t release the Level 1 task processing because we considered them 
“intermediate” files that would not be needed, or of much interest to others.

What are you wanting to do with them?

cheers,
-MH

--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu

From: Jiang Jian >
Date: Tuesday, May 23, 2017 at 9:11 PM
To: Michael Harms >
Cc: "hcp-users@humanconnectome.org" 
>
Subject: Re:Re: [HCP-Users] run-level (level 1） functional MRI data

Hi Michael,

I am sorry I didn't put it clearly. I want "level 1 " results processed through 
the task model (GLM)? Are they in file
 
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}__{L,R}.native.func.gii?

Thanks,
Jiang Jian





At 2017-05-23 22:31:34, "Harms, Michael" 
> wrote:

Hi,
Do you want the “Level 1” results processed through the task model (GLM)?

Or, do you just want the “minimally preprocessed” data that entered into the 
task analysis scripts?  These are available in:
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}_Atlas_MSMAll.dtseries.nii
 for the “MSMAll” registered version.

cheers,
-MH

--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu

From: 
>
 on behalf of Jiang Jian >
Date: Monday, May 22, 2017 at 9:26 PM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] run-level (level 1） functional MRI data

Dear Professors,

I want to use run-level data to do some analysis, and I wonder would  file 
named *.native.fun.gii (e.g., tfMRI_WM_LR.L.natiive.func.gii) contains 
run-level functional data?


Best,

Jiang Jian

-
Graduate Student
Beijing Normal University, 100875





___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users


The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.






The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.

___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users

Re: [HCP-Users] run-level (level 1） functional MRI data

[Harms, Michael]

Hi,
Do you want the “Level 1” results processed through the task model (GLM)?

Or, do you just want the “minimally preprocessed” data that entered into the 
task analysis scripts?  These are available in:
${subj}/MNINonLinear/Results/${fMRIName}_{LR,RL}/${fMRIName}_{LR,RL}_Atlas_MSMAll.dtseries.nii
 for the “MSMAll” registered version.

cheers,
-MH

--
Michael Harms, Ph.D.
---
Conte Center for the Neuroscience of Mental Disorders
Washington University School of Medicine
Department of Psychiatry, Box 8134
660 South Euclid Ave. Tel: 314-747-6173
St. Louis, MO  63110 Email: mha...@wustl.edu

From: 
>
 on behalf of Jiang Jian >
Date: Monday, May 22, 2017 at 9:26 PM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] run-level (level 1） functional MRI data

Dear Professors,

I want to use run-level data to do some analysis, and I wonder would  file 
named *.native.fun.gii (e.g., tfMRI_WM_LR.L.natiive.func.gii) contains 
run-level functional data?


Best,

Jiang Jian

-
Graduate Student
Beijing Normal University, 100875





___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users


The materials in this message are private and may contain Protected Healthcare 
Information or other information of a sensitive nature. If you are not the 
intended recipient, be advised that any unauthorized use, disclosure, copying 
or the taking of any action in reliance on the contents of this information is 
strictly prohibited. If you have received this email in error, please 
immediately notify the sender via telephone or return mail.

___
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users