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Dustin Rogers
,
Hui Zhang
2
7/21/23
Thresholding Grey Matter Fraction (GBSS)
Hi Dustin, I suggest you consider trying the method based on free surfer that we used here https://
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Thresholding Grey Matter Fraction (GBSS)
Hi Dustin, I suggest you consider trying the method based on free surfer that we used here https://
7/21/23
Karin Westin
,
Hui Zhang
5
6/17/23
403 Forbidden error when trying to download Beginner's tutorial
Fantastic! Certainly a smoother approach than reading different threads here and trying to patch
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403 Forbidden error when trying to download Beginner's tutorial
Fantastic! Certainly a smoother approach than reading different threads here and trying to patch
6/17/23
Andra Braban
,
Hui Zhang
2
6/16/23
brain mask for preprocessing and NODDI fitting
Hello Andra, I usually apply BET directly to the first b=0 volume. By choosing the value for “-f”
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brain mask for preprocessing and NODDI fitting
Hello Andra, I usually apply BET directly to the first b=0 volume. By choosing the value for “-f”
6/16/23
Dario Del Cuore
, …
Daniel Salinas
12
5/18/23
batch_fitting error
Thank you Matt We had this same problem using a cluster with an older Matlab 2016 and this worked
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batch_fitting error
Thank you Matt We had this same problem using a cluster with an older Matlab 2016 and this worked
5/18/23
Qianlan Chen
,
Hui Zhang
4
4/23/23
NODDI outputs from AMICO quality check
Hi Qianqian, Can you provide the difference map? By the way, from the AMICO command line output
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NODDI outputs from AMICO quality check
Hi Qianqian, Can you provide the difference map? By the way, from the AMICO command line output
4/23/23
Hyungyou Park
, …
Hui Zhang
4
3/31/23
To verify output files
Hi Pratik, I've looked at this in the original NODDI paper as well. FISO is also less accurate
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To verify output files
Hi Pratik, I've looked at this in the original NODDI paper as well. FISO is also less accurate
3/31/23
James Grist
,
Hui Zhang
2
3/31/23
Bingham-NODDI
Hi James, Although we currently don't have plans to release our Matlab implementation of Bingham-
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Bingham-NODDI
Hi James, Although we currently don't have plans to release our Matlab implementation of Bingham-
3/31/23
Sittaya Buathong
,
Hui Zhang
3
11/20/22
Degraded quality of NODDI maps
Dear Gary, Thank you for your prompt reply. My protocol consists of 92 directions of b-vector with
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Degraded quality of NODDI maps
Dear Gary, Thank you for your prompt reply. My protocol consists of 92 directions of b-vector with
11/20/22
Jee Won Kang
8/26/22
Importance of big/small delta for bipolar acquisition scheme
Hello, I was hoping to get some clarification on whether the default toolbox parameters can be used
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Importance of big/small delta for bipolar acquisition scheme
Hello, I was hoping to get some clarification on whether the default toolbox parameters can be used
8/26/22
Maria Ana
,
Hui Zhang
2
6/24/22
High FICVF in CSF
Hi Ana, This is a good question that had been raised by others. See the thread below with my
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High FICVF in CSF
Hi Ana, This is a good question that had been raised by others. See the thread below with my
6/24/22
Manuel Blesa Cábez
, …
Hui Zhang
10
6/11/22
Resume an interrupted run
Hi Qi, With the current implementation, it is the user's responsibility to make sure the input
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Resume an interrupted run
Hi Qi, With the current implementation, it is the user's responsibility to make sure the input
6/11/22
Hui Zhang
5/28/22
Re: SaveParamsAsNIfTI error
Hi Laura, Did you experience the same problem with the provided example data? Gary On Wed, 11 May
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Re: SaveParamsAsNIfTI error
Hi Laura, Did you experience the same problem with the provided example data? Gary On Wed, 11 May
5/28/22
zeno Zeng
,
Hui Zhang
3
5/3/22
batch_fitting_single estimated hours and voxel number
Hi Gary, Thanks for the prompt response. I am now trying the earlier release of 2012b to give it a
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batch_fitting_single estimated hours and voxel number
Hi Gary, Thanks for the prompt response. I am now trying the earlier release of 2012b to give it a
5/3/22
Md. Mamun Al-Amin
,
Hui Zhang
5
4/18/22
FICVF image problem
Hi Gary, Thank you very much for your prompt reply. I will contact our MRI physicist soon. Kind
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FICVF image problem
Hi Gary, Thank you very much for your prompt reply. I will contact our MRI physicist soon. Kind
4/18/22
Manish Amin
, …
Md. Mamun Al-Amin
19
4/14/22
fICVF is always 1?
Hi Manish, Would you be able to send the tutorial? Thanks in advance. Kind regards Mamun On Wednesday
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fICVF is always 1?
Hi Manish, Would you be able to send the tutorial? Thanks in advance. Kind regards Mamun On Wednesday
4/14/22
Md. Mamun Al-Amin
,
Hui Zhang
2
3/9/22
batch_fitting command is shutting down
Hi Mamun, The message "0 of voxels to fit" is telling you that the roi.mat file you created
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batch_fitting command is shutting down
Hi Mamun, The message "0 of voxels to fit" is telling you that the roi.mat file you created
3/9/22
Sittaya Buathong
,
Hui Zhang
13
3/5/22
MATLAB:UndefinedFunction
It will work well if it has b=0 volume with bvec [0 0 0] between the last volume with b= 1000 and the
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MATLAB:UndefinedFunction
It will work well if it has b=0 volume with bvec [0 0 0] between the last volume with b= 1000 and the
3/5/22
Rodolphe
,
Hui Zhang
2
3/3/22
Free water correction
Hi, Actually, that figure came from running the current version of NODDI toolbox on the example
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Free water correction
Hi, Actually, that figure came from running the current version of NODDI toolbox on the example
3/3/22
Qianlan Chen
,
Hui Zhang
4
2/15/22
error with batch_fitting
Glad to hear. Gary On Mon, 14 Feb 2022 at 21:16, 陈 <chenqia...@126.com> wrote: Hi Gary,
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error with batch_fitting
Glad to hear. Gary On Mon, 14 Feb 2022 at 21:16, 陈 <chenqia...@126.com> wrote: Hi Gary,
2/15/22
Gökcan Okur
,
Hui Zhang
2
1/6/22
NODDI test dataset
Hi, Did you follow through all the steps? If you had, you would have a set of NIfTI images that can
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NODDI test dataset
Hi, Did you follow through all the steps? If you had, you would have a set of NIfTI images that can
1/6/22
Gökcan Okur
,
Hui Zhang
3
1/6/22
CreateROI error
Thank you so much, Gary. I managed to complete the tutorial using precompile libraries. Best, Gokcan
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CreateROI error
Thank you so much, Gary. I managed to complete the tutorial using precompile libraries. Best, Gokcan
1/6/22
Gary
11/29/21
Announcing tissue-weighted mean
Dear all, I am thrilled to share an exciting new development with you. I'm pleased to announce
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Announcing tissue-weighted mean
Dear all, I am thrilled to share an exciting new development with you. I'm pleased to announce
11/29/21
Tigris Joseph
,
Gary
3
11/6/21
Are intra-cellular volume fraction, intra-neurite volume fraction, and neurite density index the same thing?
Oops. Just noticed that auto-correct just caught me out. Sorry Tigris! On Saturday, November 6, 2021
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Are intra-cellular volume fraction, intra-neurite volume fraction, and neurite density index the same thing?
Oops. Just noticed that auto-correct just caught me out. Sorry Tigris! On Saturday, November 6, 2021
11/6/21
gran...@uci.edu
,
Gary
2
10/29/21
Cannot Read Header Extension
Sorry Steve. I load NIfTI volumes with a third-party tool - the NIfTI Matlab toolbox (https://github.
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Cannot Read Header Extension
Sorry Steve. I load NIfTI volumes with a third-party tool - the NIfTI Matlab toolbox (https://github.
10/29/21
Kodiweera
, …
Clio Gonzalezzacarias
13
9/27/21
fmin map
Thanks Gary for your help. All the best, Clio On Saturday, September 25, 2021 at 4:04:37 AM UTC-7
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fmin map
Thanks Gary for your help. All the best, Clio On Saturday, September 25, 2021 at 4:04:37 AM UTC-7
9/27/21
kar.kan...@gmail.com
6/16/21
AMICO downsides?
Hi everyone, I'm wondering if there are any downsides I should be aware of when using AMICO for
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AMICO downsides?
Hi everyone, I'm wondering if there are any downsides I should be aware of when using AMICO for
6/16/21
Hui Zhang
,
Chandana
2
11/21/20
Announcing NODDI Matlab Toolbox 1.0.2
Hi Gary, I started analyzing a new project using new NODDI version! At the same time, I took a look
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Announcing NODDI Matlab Toolbox 1.0.2
Hi Gary, I started analyzing a new project using new NODDI version! At the same time, I took a look
11/21/20
Abdulmajeed Alotaibi
10/13/20
NODDI Maps Look Noisy
Dear NODDI experts, I acquired multi-shell diffusion data on a 3T (Philips ingenia) scanner for
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NODDI Maps Look Noisy
Dear NODDI experts, I acquired multi-shell diffusion data on a 3T (Philips ingenia) scanner for
10/13/20
ama...@bu.edu
,
Hui Zhang
2
8/14/20
Create ROI Error
Hi, It looks like you did not understand the instructions from the NODDI toolbox website. I have
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Create ROI Error
Hi, It looks like you did not understand the instructions from the NODDI toolbox website. I have
8/14/20
Karin Kantarovich
, …
Alessandro Daducci
9
5/25/20
error with SaveParamsAsNIfTI
Great, thank you both! Karin
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error with SaveParamsAsNIfTI
Great, thank you both! Karin
5/25/20