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





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[HCP-Users] GIFTI surface data

[wtj]

Hi,

I use the lifespan rfMRI data. After preprocessing, there is a file in
/subject/MNINonLinear/Results/rfMRI_REST1_LR named
rfMRI_REST1_LR.L.native.func.gii with size, for example, 130576*420. Is this
file the cortical BOLD signal time series data? Can I use it to do rfMRI
analysis?

Thanks.


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Re: [HCP-Users] Overlaying atlas in Connectome Workbench

[Zachary Monge]

It is not for each individual and it is in MNI space. All I want to do is 
overlay the NIFTI onto a surface in MNI space.


Thanks!


Zach



From: Glasser, Matthew 
Sent: Tuesday, May 23, 2017 1:31 PM
To: Zachary Monge; NEUROSCIENCE tim
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench

Is this a NIFTI file in each individual subject or a group average NIFTI file?  
There isn’t a great way for mapping from group average NIFTI to surface, as the 
group averaging process causes a lot of blurring across subjects all over the 
cortex and also group average surfaces have their own issues.

Peace,

Matt

From: 
>
 on behalf of Zachary Monge 
>
Date: Tuesday, May 23, 2017 at 12:15 PM
To: Timothy Coalson >
Cc: "hcp-users@humanconnectome.org" 
>
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench


Hi Tim,


Thanks for the clarification! As of now my atlas is a nifti file. How can I 
create gifti label files from a nifti file?


Sorry if this has been posted in the past...


Sincerely,


Zach



From: Timothy Coalson >
Sent: Friday, May 19, 2017 5:02 PM
To: Zachary Monge
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench

You can create borders from gifti label files by using wb_command 
-label-to-border.  For doing analysis within parcels, take a look at wb_command 
-cifti-parcellate.

For just showing the boundaries on top of other data, you can load the data 
into wb_view, set it up as a layer, click the wrench icon in the layer, go to 
the "Labels" tab, and change "drawing type" to "outline color" or "outline 
label color".

Tim


On Fri, May 19, 2017 at 1:29 PM, Zachary Monge 
> wrote:

Hi,


I have a custom atlas (471 ROIs) that I would like to overlay on a surface and 
create borders for each ROI. Is there a way I can do this in the Connectome 
Workbench?


I eventually would like to use this overlay to display results (t-values) of 
analyses ran for each of the ROIs.


I would greatly appreciate any help!


Sincerely,


Zach Monge

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Re: [HCP-Users] Overlaying atlas in Connectome Workbench

[Glasser, Matthew]

Is this a NIFTI file in each individual subject or a group average NIFTI file?  
There isn’t a great way for mapping from group average NIFTI to surface, as the 
group averaging process causes a lot of blurring across subjects all over the 
cortex and also group average surfaces have their own issues.

Peace,

Matt

From: 
>
 on behalf of Zachary Monge 
>
Date: Tuesday, May 23, 2017 at 12:15 PM
To: Timothy Coalson >
Cc: "hcp-users@humanconnectome.org" 
>
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench


Hi Tim,


Thanks for the clarification! As of now my atlas is a nifti file. How can I 
create gifti label files from a nifti file?


Sorry if this has been posted in the past...


Sincerely,


Zach



From: Timothy Coalson >
Sent: Friday, May 19, 2017 5:02 PM
To: Zachary Monge
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench

You can create borders from gifti label files by using wb_command 
-label-to-border.  For doing analysis within parcels, take a look at wb_command 
-cifti-parcellate.

For just showing the boundaries on top of other data, you can load the data 
into wb_view, set it up as a layer, click the wrench icon in the layer, go to 
the "Labels" tab, and change "drawing type" to "outline color" or "outline 
label color".

Tim


On Fri, May 19, 2017 at 1:29 PM, Zachary Monge 
> wrote:

Hi,


I have a custom atlas (471 ROIs) that I would like to overlay on a surface and 
create borders for each ROI. Is there a way I can do this in the Connectome 
Workbench?


I eventually would like to use this overlay to display results (t-values) of 
analyses ran for each of the ROIs.


I would greatly appreciate any help!


Sincerely,


Zach Monge

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Re: [HCP-Users] Overlaying atlas in Connectome Workbench

[Zachary Monge]

Hi Tim,


Thanks for the clarification! As of now my atlas is a nifti file. How can I 
create gifti label files from a nifti file?


Sorry if this has been posted in the past...


Sincerely,


Zach



From: Timothy Coalson 
Sent: Friday, May 19, 2017 5:02 PM
To: Zachary Monge
Cc: hcp-users@humanconnectome.org
Subject: Re: [HCP-Users] Overlaying atlas in Connectome Workbench

You can create borders from gifti label files by using wb_command 
-label-to-border.  For doing analysis within parcels, take a look at wb_command 
-cifti-parcellate.

For just showing the boundaries on top of other data, you can load the data 
into wb_view, set it up as a layer, click the wrench icon in the layer, go to 
the "Labels" tab, and change "drawing type" to "outline color" or "outline 
label color".

Tim


On Fri, May 19, 2017 at 1:29 PM, Zachary Monge 
> wrote:

Hi,


I have a custom atlas (471 ROIs) that I would like to overlay on a surface and 
create borders for each ROI. Is there a way I can do this in the Connectome 
Workbench?


I eventually would like to use this overlay to display results (t-values) of 
analyses ran for each of the ROIs.


I would greatly appreciate any help!


Sincerely,


Zach Monge

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Re: [HCP-Users] Incomplete diffuson datasets

[Glasser, Matthew]

Why would you only want to use b1000 scans?  Those have less contrast for 
tractography.
Peace,

Matt.

From: Ariana Cahn >
Date: Tuesday, May 23, 2017 at 11:10 AM
To: Matt Glasser >
Subject: Re: [HCP-Users] Incomplete diffuson datasets

Sorry; tractography using the b1000 scans.

On Tue, May 23, 2017 at 10:10 AM, Glasser, Matthew 
> wrote:
What is b1000 tractography and why would you want to do that?

Peace,

Matt.

From: Ariana Cahn >
Date: Tuesday, May 23, 2017 at 11:06 AM
To: Matt Glasser >
Subject: Re: [HCP-Users] Incomplete diffuson datasets

When downloading the 1200 subject release diffusion data, some of the subjects 
are noted to have incomplete diffusion datasets, so I was wondering if it is 
still possible to perform b1000 tractography on these subjects given that there 
are files missing and it's impossible to know which ones are missing.

On Tue, May 23, 2017 at 10:03 AM, Glasser, Matthew 
> wrote:
Why not use all of the diffusion data that is present?

Peace,

Matt.

From: 
>
 on behalf of Ariana Cahn >
Date: Tuesday, May 23, 2017 at 10:59 AM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] Incomplete diffuson datasets

Hello,

I was wondering if it is still appropriate to perform b1000 tractography on 
incomplete diffusion datasets. I noticed there are files missing, and I'm just 
wondering which ones they are.

Thanks,

--
Ariana Cahn
BSc (Hons), Neuroscience

ac...@ualberta.ca

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BSc (Hons), Neuroscience

ac...@ualberta.ca



--
Ariana Cahn
BSc (Hons), Neuroscience

ac...@ualberta.ca

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Re: [HCP-Users] Incomplete diffuson datasets

[Glasser, Matthew]

What is b1000 tractography and why would you want to do that?

Peace,

Matt.

From: Ariana Cahn >
Date: Tuesday, May 23, 2017 at 11:06 AM
To: Matt Glasser >
Subject: Re: [HCP-Users] Incomplete diffuson datasets

When downloading the 1200 subject release diffusion data, some of the subjects 
are noted to have incomplete diffusion datasets, so I was wondering if it is 
still possible to perform b1000 tractography on these subjects given that there 
are files missing and it's impossible to know which ones are missing.

On Tue, May 23, 2017 at 10:03 AM, Glasser, Matthew 
> wrote:
Why not use all of the diffusion data that is present?

Peace,

Matt.

From: 
>
 on behalf of Ariana Cahn >
Date: Tuesday, May 23, 2017 at 10:59 AM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] Incomplete diffuson datasets

Hello,

I was wondering if it is still appropriate to perform b1000 tractography on 
incomplete diffusion datasets. I noticed there are files missing, and I'm just 
wondering which ones they are.

Thanks,

--
Ariana Cahn
BSc (Hons), Neuroscience

ac...@ualberta.ca

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--
Ariana Cahn
BSc (Hons), Neuroscience

ac...@ualberta.ca

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Re: [HCP-Users] Incomplete diffuson datasets

[Glasser, Matthew]

Why not use all of the diffusion data that is present?

Peace,

Matt.

From: 
>
 on behalf of Ariana Cahn >
Date: Tuesday, May 23, 2017 at 10:59 AM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] Incomplete diffuson datasets

Hello,

I was wondering if it is still appropriate to perform b1000 tractography on 
incomplete diffusion datasets. I noticed there are files missing, and I'm just 
wondering which ones they are.

Thanks,

--
Ariana Cahn
BSc (Hons), Neuroscience

ac...@ualberta.ca

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[HCP-Users] Incomplete diffuson datasets

[Ariana Cahn]

Hello,

I was wondering if it is still appropriate to perform b1000 tractography on
incomplete diffusion datasets. I noticed there are files missing, and I'm
just wondering which ones they are.

Thanks,

-- 
*Ariana Cahn*
*BSc (Hons), *Neuroscience

*ac...@ualberta.ca *

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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





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

[Jiang Jian]

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
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Re: [HCP-Users] Question about DWI protocol

[Harms, Michael]

Yes, in DiffPreprocPipeline_PostEddy.sh you’ll need to use 
“--combine-data-flag=2”

Also, I want to caution you about collecting only half of the total dMRI data 
that we collected in the UMN Lifespan piloting.  There is a reason that we 
collected a full 20 min of dMRI when using 1.5 mm resolution.  Before you 
collect less total data (at that same spatial resolution), I would run some 
piloting to check if reducing the amount of data is sufficient to generate good 
quality for your measures of interest.

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 "Glasser, Matthew" >
Date: Tuesday, May 23, 2017 at 9:01 AM
To: HMZ >, 
"hcp-users@humanconnectome.org" 
>
Cc: "g...@pku.edu.cn" 
>, Jia-Hong Gao 
>
Subject: Re: [HCP-Users] Question about DWI protocol

Yes as long as you have phase reversed b0s you can have the DWIs have unique 
directions. The HCP diffusion pipeline might need modification to accommodate 
that.

Peace,

Matt.

From: 
>
 on behalf of HMZ >
Date: Tuesday, May 23, 2017 at 2:14 AM
To: "hcp-users@humanconnectome.org" 
>
Cc: "g...@pku.edu.cn" 
>, Jia-Hong Gao 
>
Subject: [HCP-Users] Question about DWI protocol

Dear HCP experts,

This is Meizhen Han from Center for MRI research at Peking University in China. 
I'm writing for seeking a solution for the problem we encountered during the 
application of HCP MRI sequence on our recent research.

I noticed that HCP acquired DWI data twice with reversed phase direction in 
order to calculate the fieldmap, which I think is perfect but a little 
time-consuming especially when 2 or 3 gradient tables are used.

I'm wondering whether it is OK to acquire one phase encoding direction of one 
gradient table and reversed direction of another gradient table.
Taking Lifespan DWI protocol of UM for example, can we only get DWI_dir98_AP 
and DWI_dir99_PA, and then take out b0 images in both files to caculate 
fieldmap?

Any relevant information and idea would help a lot. Thank you very much!

Looking forward to your reply.

--
Best Regards!
Meizhen Han

--
Meizhen Han
PhD Candidate
Center for MRI Research
Peking University
Beijing, China





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Re: [HCP-Users] Question about DWI protocol

[Glasser, Matthew]

Yes as long as you have phase reversed b0s you can have the DWIs have unique 
directions. The HCP diffusion pipeline might need modification to accommodate 
that.

Peace,

Matt.

From: 
>
 on behalf of HMZ >
Date: Tuesday, May 23, 2017 at 2:14 AM
To: "hcp-users@humanconnectome.org" 
>
Cc: "g...@pku.edu.cn" 
>, Jia-Hong Gao 
>
Subject: [HCP-Users] Question about DWI protocol

Dear HCP experts,

This is Meizhen Han from Center for MRI research at Peking University in China. 
I'm writing for seeking a solution for the problem we encountered during the 
application of HCP MRI sequence on our recent research.

I noticed that HCP acquired DWI data twice with reversed phase direction in 
order to calculate the fieldmap, which I think is perfect but a little 
time-consuming especially when 2 or 3 gradient tables are used.

I'm wondering whether it is OK to acquire one phase encoding direction of one 
gradient table and reversed direction of another gradient table.
Taking Lifespan DWI protocol of UM for example, can we only get DWI_dir98_AP 
and DWI_dir99_PA, and then take out b0 images in both files to caculate 
fieldmap?

Any relevant information and idea would help a lot. Thank you very much!

Looking forward to your reply.

--
Best Regards!
Meizhen Han

--
Meizhen Han
PhD Candidate
Center for MRI Research
Peking University
Beijing, China





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Re: [HCP-Users] Subject keys

[Harms, Michael]

Yes, you can use the subject IDs in a public document, PROVIDED that NOTHING 
that comes from the RESTRICTED data is associated with that subject ID in your 
public document.

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 "HINDRIKS, RIKKERT" 
>
Date: Tuesday, May 23, 2017 at 5:16 AM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] Subject keys

Dear HCP-users,

Is it allowed to use the original HCP subject keys in public documents?
(I do not use the restricted data).

Thanks and kind regards,
Rikkert Hindriks

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Re: [HCP-Users] cifti MATLAB

[Harms, Michael]

Hi,

Are you using the latest gifti library available via the link mentioned here?
https://wiki.humanconnectome.org/display/PublicData/HCP+Users+FAQ#HCPUsersFAQ-2.HowdoyougetCIFTIfilesintoMATLAB?

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 wtj <1257735...@qq.com>
Date: Tuesday, May 23, 2017 at 6:05 AM
To: "hcp-users@humanconnectome.org" 
>
Subject: [HCP-Users] cifti MATLAB

Hi,
There’s something wrong when I load the cifti dense timeseries file into matlab.
>> which ciftiopen
/home/Tianjie/cifti/ciftiopen.m
>>cii=ciftiopen('/home/Tianjie/projects/WU-Minn_HCP_Lifespan_Pilot_Data_structure_preprocess/LS2001/MNINonLinear/Results/rfMRI_REST1_LR/rfMRI_REST1_LR_Atlas.dtseries.nii','/home/Tianjie/workbench/bin_rh_linux64/wb_command')
Error using file_array/permute (line 10)
file_array objects can not be permuted.

Error in read_gifti_file>gifti_Data (line 201)
d = permute(reshape(d,fliplr(s.Dim)),length(s.Dim):-1:1);

Error in read_gifti_file>gifti_DataArray (line 122)
s(1).data = gifti_Data(t,c(i),s(1).attributes);

Error in read_gifti_file (line 45)
this.data{end+1} = gifti_DataArray(t,uid(i),filename);

Error in gifti (line 74)
this = read_gifti_file(varargin{1},giftistruct);

Error in ciftiopen (line 31)
cifti = gifti([tmpfile '.gii']);

Can you see what’s wrong?
Thanks.

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Re: [HCP-Users] Group comparison of Myelin maps

[Anderson M. Winkler]

Hi Donatas,

The surface file, that correspond to one particular subject, is probably
fine as far as it has the same geometry (number of vertices and faces) as
all other subjects.

For the area file, PALM expects it to be the average area across all
subjects, as opposed to the actual areas for all subjects. To fix, just
average the areas. I think the option -metric-reduce of wb_command should
do it.

Hope this solves the problem!

All the best,

Anderson


On 22 May 2017 at 06:51, Donatas Sederevicius  wrote:

> Dear HCP experts,
>
>
>
> I'm trying to run a group analysis of Myelin maps using PALM. For data
> pre-processing I followed the example as described here:
> https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/PALM/Examples#Example
> _10:_Using_CIFTI_files (Case 2). My final command is:
>
>
>
> palm -i TP2.lh.func.gii -s lh.midthickness.surf.gii TP2.lh.area.func.gii
> -d design.mat -t design.con -n 5000 -o results.lh.cort
> -evperdat TP1.lh.func.gii 5 -C 3.1 -corrcon -ee -T -transposedata
>
>
>
> -lh.midthickness.surf.gii is a file that has a surface mapping for one
> particular subject of the group (followed http://www.mail-archive.com/hc
> p-us...@humanconnectome.org/msg03820.html)
>
>
>
> -TP2.lh.func.gii and TP1.lh.func.gii are metric files concatenated for
> all subjects in the same order. Therefore, I'm using timepoint 1 data as a
> regressor.
>
>
>
> When running the command I get the following error:
>
> ---
>
> Index exceeds Matrix Dimensions.
>
>
>
> Error in palm_clustere (line 81)
>
> elseif plm.Yisvtx(y) || plm.Yisfac(y),
>
>
>
>
>
> Error in palm_core (line 1678)
>
>
>
> [plm.Gclumax{y}{m}{c}(p),plm.Gclu{y}{m}{c}]
>
> = clusterfunc( ...
>
>
>
> Error in palm (line 81)
>
> palm_core(varargin{:});
>
> --
>
> What could be wrong?
>
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[HCP-Users] cifti MATLAB

[wtj]

Hi,

There's something wrong when I load the cifti dense timeseries file into
matlab.

>> which ciftiopen

/home/Tianjie/cifti/ciftiopen.m

>>cii=ciftiopen('/home/Tianjie/projects/WU-Minn_HCP_Lifespan_Pilot_Data_stru
cture_preprocess/LS2001/MNINonLinear/Results/rfMRI_REST1_LR/rfMRI_REST1_LR_A
tlas.dtseries.nii','/home/Tianjie/workbench/bin_rh_linux64/wb_command')

Error using file_array/permute (line 10)

file_array objects can not be permuted.

 

Error in read_gifti_file>gifti_Data (line 201)

d = permute(reshape(d,fliplr(s.Dim)),length(s.Dim):-1:1);

 

Error in read_gifti_file>gifti_DataArray (line 122)

s(1).data = gifti_Data(t,c(i),s(1).attributes);

 

Error in read_gifti_file (line 45)

this.data{end+1} = gifti_DataArray(t,uid(i),filename);

 

Error in gifti (line 74)

this = read_gifti_file(varargin{1},giftistruct);

 

Error in ciftiopen (line 31)

cifti = gifti([tmpfile '.gii']);

 

Can you see what's wrong?

Thanks.


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[HCP-Users] Subject keys

[HINDRIKS, RIKKERT]

Dear HCP-users,

Is it allowed to use the original HCP subject keys in public documents?
(I do not use the restricted data).

Thanks and kind regards,
Rikkert Hindriks

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[HCP-Users] Question about DWI protocol

[HMZ]

Dear HCP experts,

This is Meizhen Han from Center for MRI research at Peking University in China. 
I'm writing for seeking a solution for the problem we encountered during the 
application of HCP MRI sequence on our recent research. 


I noticed that HCP acquired DWI data twice with reversed phase direction in 
order to calculate the fieldmap, which I think is perfect but a little 
time-consuming especially when 2 or 3 gradient tables are used.

I'm wondering whether it is OK to acquire one phase encoding direction of one 
gradient table and reversed direction of another gradient table. 
Taking Lifespan DWI protocol of UM for example, can we only get DWI_dir98_AP 
and DWI_dir99_PA, and then take out b0 images in both files to caculate 
fieldmap? 

Any relevant information and idea would help a lot. Thank you very much!

Looking forward to your reply.


--

Best Regards!
Meizhen Han

--
Meizhen Han


PhD Candidate

Center for MRI Research

Peking University

Beijing, China
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