Re: [HCP-Users] how to map DTI data to CIFTI space and do network analysis by MMP parcellation ?

[Glasser, Matthew]

Do you want to do tractography?

Peace,

Matt.

From: 
mailto:hcp-users-boun...@humanconnectome.org>>
 on behalf of "baixi...@gmail.com" 
mailto:baixi...@gmail.com>>
Date: Thursday, June 28, 2018 at 8:53 AM
To: hcp-users 
mailto:hcp-users@humanconnectome.org>>
Subject: [HCP-Users] how to map DTI data to CIFTI space and do network analysis 
by MMP parcellation ?

Dear expert :

I have successfully processed my T1w and fMRI data into CIFTI space. Now I 
get some DTI data which include something like .bval / .bvec files. I donot 
know how to process them into CIFTI and do network analysis by MMP parcellation?

Thank you!
BestRegards!

Bocheng Wang



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[HCP-Users] how to map DTI data to CIFTI space and do network analysis by MMP parcellation ?

[baixi...@gmail.com]

Dear expert :

I have successfully processed my T1w and fMRI data into CIFTI space. Now I 
get some DTI data which include something like .bval / .bvec files. I donot 
know how to process them into CIFTI and do network analysis by MMP parcellation?

Thank you!
BestRegards!

Bocheng Wang




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Re: [HCP-Users] Gambling task phase encoding

[Glasser, Matthew]

The Gambling contrast itself (reward-punish) didn¹t work very well.

Matt.

On 6/28/18, 3:48 AM, "hcp-users-boun...@humanconnectome.org on behalf of
Filip Grill"  wrote:

>Dear HCP users,
>
>I am interested in using the fMRI data from the gambling task for my
>project. Ultimately I will use the CIFTI files but right now I am trying
>to understand the data inside and out so I have started looking at the
>minimally processed NIFTI files. I have noticed that when using LR and RL
>individually gives quite different group maps. I understand that this is
>expected and one should not use just one phase encoding direction but it
>looks like RL is picking up activity more laterally and LR is picking up
>activity along the midline. I would have expected it to be more of a
>right - left difference. Could somebody explain this to me?
>
>Thanks
>Filip
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[HCP-Users] Gambling task phase encoding

[Filip Grill]

Dear HCP users,

I am interested in using the fMRI data from the gambling task for my project. 
Ultimately I will use the CIFTI files but right now I am trying to understand 
the data inside and out so I have started looking at the minimally processed 
NIFTI files. I have noticed that when using LR and RL individually gives quite 
different group maps. I understand that this is expected and one should not use 
just one phase encoding direction but it looks like RL is picking up activity 
more laterally and LR is picking up activity along the midline. I would have 
expected it to be more of a right - left difference. Could somebody explain 
this to me?

Thanks
Filip
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Re: [HCP-Users] list of significant parcels

[Timothy Coalson]

You can export the data from the parcellated cifti file with wb_command
-cifti-convert -to-text, but that doesn't contain the parcel names.  The
-file-information command will tell you the parcel names, in the order they
are in the file, giving you the missing piece.

Tim


On Thu, Jun 28, 2018, 8:37 AM Aaron R  wrote:

> Hi Matt,
>
> Thanks for the reply, but unfortunately wb_command -file-information
> doesn't help. It shows all of the parcels of the original parcellation.
> Presumably they're all still there, but some now have a zero value after
> thresholding.
>
> Thanks,
> Aaron
>
>
> On Wed, Jun 27, 2018 at 11:56 PM, Glasser, Matthew 
> wrote:
>
>> wb_command -file-information might be able to help with this.
>>
>> Matt.
>>
>> From:  on behalf of Aaron R <
>> aaro...@gmail.com>
>> Date: Wednesday, June 27, 2018 at 8:19 AM
>> To: "hcp-users@humanconnectome.org" 
>> Subject: [HCP-Users] list of significant parcels
>>
>> Dear HCP users,
>>
>> I would like to know which parcels survived thresholding (using
>> wb_command -cifti-math on ptseries) - just a list of parcel names, e.g.
>> L_p10p_ROI, L_p47r_ROI, L_TGv_ROI, AMYGDALA_LEFT, etc.
>>
>> I've converting to ROI, cifti-reduce, cifti-restrict-dense-map, etc. No
>> luck. Is there any way to do this, besides clicking on everything in the
>> GUI?
>>
>> Thanks,
>> Aaron
>>
>>
>>
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>>
>
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Re: [HCP-Users] list of significant parcels

[Aaron R]

Hi Matt,

Thanks for the reply, but unfortunately wb_command -file-information
doesn't help. It shows all of the parcels of the original parcellation.
Presumably they're all still there, but some now have a zero value after
thresholding.

Thanks,
Aaron


On Wed, Jun 27, 2018 at 11:56 PM, Glasser, Matthew 
wrote:

> wb_command -file-information might be able to help with this.
>
> Matt.
>
> From:  on behalf of Aaron R <
> aaro...@gmail.com>
> Date: Wednesday, June 27, 2018 at 8:19 AM
> To: "hcp-users@humanconnectome.org" 
> Subject: [HCP-Users] list of significant parcels
>
> Dear HCP users,
>
> I would like to know which parcels survived thresholding (using wb_command
> -cifti-math on ptseries) - just a list of parcel names, e.g. L_p10p_ROI,
> L_p47r_ROI, L_TGv_ROI, AMYGDALA_LEFT, etc.
>
> I've converting to ROI, cifti-reduce, cifti-restrict-dense-map, etc. No
> luck. Is there any way to do this, besides clicking on everything in the
> GUI?
>
> Thanks,
> Aaron
>
>
>
> ___
> HCP-Users mailing list
> HCP-Users@humanconnectome.org
> http://lists.humanconnectome.org/mailman/listinfo/hcp-users
>

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