Dear Sir/Madam,
Hello! I apply for joining the "HCP-Users" mailing list. I would be very
appreciative if I could have the honor to be added. Thank you very much! :)
Best regards,
Xinyang Liu
Forwarding messages
From: hcp-users-requ...@humanconnectome.org
Date: 201
es. For example, in one emotion task, the
>> reaction time was recorded as "Emotion_Task_Median_RT" in one column. Do you
>> know how to get the trial-level behavioral results? Thank you very much.
>>
>> Best regards,
&g
for single stimulus. The behavioral results for each subject are all
median values. For example, in one emotion task, the reaction time was recorded
as "Emotion_Task_Median_RT" in one column. Do you know how to get the
trial-level behavioral results? Thank you very much.
Best
generated!
Could you suggest possible reasons of how this happened? Thanks a lot!
Best regards,
Xinyang Liu
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in the future.
Best regards,
Xinyang
At 2017-08-29 10:29:57, "Glasser, Matthew" <glass...@wustl.edu> wrote:
If this is with FSL’s GUI, you might need to ask about it on the FSL list.
Peace,
Matt.
From: <hcp-users-boun...@humanconnectome.org> on behalf of Xinyang Liu
<xi
those of us who answer
questions on this list know much about the FSL GUIs. We generally are more
knowledgable about the FSL command line.
Peace,
Matt.
From: Xinyang Liu <xinyang_ie...@163.com>
Date: Monday, August 28, 2017 at 10:04 PM
To: Matt Glasser <glass...@wustl.edu>
Cc: &q
. Thanks.
Best regards,
Xinyang Liu
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Peace,
Matt.
From: <hcp-users-boun...@humanconnectome.org> on behalf of Xinyang Liu
<xinyang_ie...@163.com>
Date: Monday, November 20, 2017 at 9:33 PM
To: HCP 讨论组 <hcp-users@humanconnectome.org>
Subject: [HCP-Users] Structural space diffusion data
Dear HCP experts,
Wh
bvecs so dtifit or bedpostx are still
valid to apply.
Resolution is separate from registration. For example you can overlay images
in the same mm space but different resolutions in Connectome Workbench.
Peace,
Matt.
From: Xinyang Liu <xinyang_ie...@163.com>
Date: Tuesday, Novemb
ce,
Matt.
From: on behalf of Xinyang Liu
Date: Thursday, June 7, 2018 at 8:33 AM
To: HCP 讨论组
Subject: [HCP-Users] wb_command -metric-rois-from-extrema
Dear HCP experts,
Hi. I have some confusions when using the workbench command
-metric-rois-from-extrema. When using it to draw ROIs
Dear HCP experts,
In the behavioral TAB.txt of each participant's tfMRI folder, there is a column
named HCPID. In this column, each participant's ID number is followed by a
"_fnca" or "_fncb". Could you please tell what these fnca and fncb mean? Thank
you very much.
Best regards,
Xinyang
!
Best regards,
Xinyang Liu
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elize with fewer samples and using different random numbers and
then combine after the fact.
Peace,
Matt.
From: Xinyang Liu <xinyang_ie...@163.com>
Date: Thursday, February 1, 2018 at 5:20 AM
To: Matt Glasser <glass...@wustl.edu>
Cc: HCP 讨论组 <hcp-users@humanconnectome.org>
tt.
From: <hcp-users-boun...@humanconnectome.org> on behalf of Xinyang Liu
<xinyang_ie...@163.com>
Date: Thursday, February 1, 2018 at 3:14 AM
To: HCP 讨论组 <hcp-users@humanconnectome.org>
Subject: [HCP-Users] software to do deterministic tractography
Dear HCP experts,
Could you
ifferent --rseed and then combine them afterwards for a
full dataset.
Peace,
Matt.
From: Xinyang Liu <xinyang_ie...@163.com>
Date: Thursday, February 1, 2018 at 5:44 AM
To: Matt Glasser <glass...@wustl.edu>
Cc: HCP 讨论组 <hcp-users@humanconnectome.org>
Subject: Re: [HCP-Users] softwar
Dear HCP experts,
Could you please recommend us some software for the deterministic tractography
analysis of HCP data? We are at the beginning to do that and wondering what to
choose for the high-quality data. Any suggestions would be very appreciated.
Thanks.
Best regards,
Xinyang Liu
Dear HCP experts,
Hi. When using workbench command "-metric-extrema" to draw ROI around the
maximum point of the fMRI surface region, what would happen if there are two
maximum points? Will the software keep both of them or only keep one? Thanks a
lot.
Best regards,
Xinyang
are somewhat complicated, and
it was implemented by request of others, it is not something that we use.
Tim
On Fri, Aug 24, 2018 at 7:11 AM, Xinyang Liu wrote:
Hi, Matt. Thank you very much for your reply.
The extreme point was searched in a certain surface area. Do you mean that even
, "Glasser, Matthew" wrote:
I believe there is a configurable setting that sets the minimum distance
between extrema. It is a local min/max that is found.
Matt.
From: on behalf of Xinyang Liu
Date: Friday, August 24, 2018 at 4:21 AM
To: HCP 讨论组
Subject: [HCP-Users] two maximum po
nsform one of them to .asc?
Best regards,
Xinyang
At 2018-08-27 01:12:54, "Glasser, Matthew" wrote:
The other should be in the next map of the ROI file.
Matt.
From: Xinyang Liu
Date: Sunday, August 26, 2018 at 2:41 AM
To: Matt Glasser
Cc: Timothy Coalson , HCP 讨论组
Subject:
Ok, I will do that. Thanks. :)
Best,
Xinyang
At 2018-08-27 11:16:42, "Glasser, Matthew" wrote:
Would have to ask that on the FSL list.
Matt.
From: Xinyang Liu
Date: Sunday, August 26, 2018 at 10:14 PM
To: Matt Glasser
Cc: Timothy Coalson , HCP 讨论组
Subject: Re: [HCP-Users] t
are saved separately with two sets of global grayordinate
coordinates? Thanks.
Best regards,
Xinyang
At 2018-08-27 11:16:42, "Glasser, Matthew" wrote:
Would have to ask that on the FSL list.
Matt.
From: Xinyang Liu
Date: Sunday, August 26, 2018 at 10:14 PM
To: Matt Glasser
C
d in a different way (and with different,
more elaborate metadata).
Tim
On Tue, Aug 28, 2018 at 10:55 PM, Xinyang Liu wrote:
Dear experts,
Could I ask an additional question following my previous emails about the CIFTI
data display?
If two surface ROIs of one .func.gii file are displa
rds,
Xinyang
At 2018-08-26 13:03:42, "Glasser, Matthew" wrote:
How about posting some screen captures so we know what is happening?
Matt.
From: Xinyang Liu
Date: Saturday, August 25, 2018 at 11:51 PM
To: Timothy Coalson
Cc: Matt Glasser , HCP 讨论组
Subject: Re: [HCP-Users] two maxi
Dear HCP experts,
Hi. We are currently looking at the out-scanner behavioral data. There are two
questions about the NIH Processing speed task:
1. In the Processing speed raw data, there are two similar task names. One is
"NIH TB Pattern Comparison Processing Speed Age 7+", the other is "NIH
users-boun...@humanconnectome.org
on behalf of Xinyang Liu
Sent: Friday, July 6, 2018 5:52 AM
To: HCP 讨论组
Subject: [HCP-Users] questions about the out-scanner NIH Processing speed task
Dear HCP experts,
Hi. We are currently looking at the out-scanner behavioral data. There are two
questions about the NIH
<tsc...@mst.edu> wrote:
Inline replies to some comments.
Tim
On Wed, Apr 4, 2018 at 7:38 AM, Xinyang Liu <xinyang_ie...@163.com> wrote:
Dear Matthew,
Thank you very much for your detailed explanation!
1. The current situation of our study is that, we used the HCP MMP1.0 atlas to
verything" also include the GIFTI files (.func.gii) which were converted from
the tfMRI CIFTI (.dtseries.nii) files, apart from the original CIFTI files
themselves? Thanks!
Best regards,
Xinyang
在 2018-04-06 12:36:26,"Timothy Coalson" <tsc...@mst.edu> 写道:
On Thu, Apr 5, 2018
ere is no native diffusion space, as this is unnecessary. Tracking
occurs subject’s physical space and you can use the surfaces in
${StudyFolder}/${Subject}/T1w/fsaverage_LR32k with MSMAll if you don’t use
--xfm and --invxfm or those in
${StudyFolder}/${Subject}/MNINonLinear/fsaverage_LR32k if
On Sun, Apr 8, 2018 at 5:27 AM, Xinyang Liu <xinyang_ie...@163.com> wrote:
Dear Tim,
Hi. Thanks a lot to your very detailed explanation, I am more clear now about
the underpinning relationships. :)
Just to make sure one more thing, when you mentioned "if ignoring the
subcor
<tsc...@mst.edu>
Date: Monday, April 16, 2018 at 4:10 PM
To: Xinyang Liu <xinyang_ie...@163.com>
Cc: HCP 讨论组 <hcp-users@humanconnectome.org>, Matt Glasser <glass...@wustl.edu>
Subject: Re: [HCP-Users] using surfaces as termination masks
Inline replies.
Tim
On S
image.
Problem solved. Sorry to disturb with such a hurried asking.
Wish everyone a good day. :)
Best regards,
Xinyang
在 2018-04-18 16:00:36,"Xinyang Liu" <xinyang_ie...@163.com> 写道:
Dear experts,
Hi. Sorry that I made a mistake in my last email.
The "100307.L.whi
Dear HCP experts,
Hi. In the subject's structural folder, there is a file called "wmparc", which
seems to be the combination of the white matter and grey matter according to
fslview.
My questions are:
1. Is there any other brain structures included in this data apart from grey
and white
From: <hcp-users-boun...@humanconnectome.org> on behalf of Xinyang Liu
<xinyang_ie...@163.com>
Date: Tuesday, April 3, 2018 at 1:52 AM
To: HCP 讨论组 <hcp-users@humanconnectome.org>
Subject: [HCP-Users] questions about using HCP surface ROIs in prob-tracking
Dear HCP experts,
ROI with HCP data?
3. The FSL says that it now accepts surface data, does it mean we don't need to
do transfer between surface and diffusion space and then set parameters like
--xmf, --meshspace and --seedref?
Any guidance would be very appreciated.
Best regards,
Xinyang Liu
Dear HCP experts,
Hi. We are looking at the HCP battery of behavioral measures. We found that in
the recordings of individual performances, there are some participants who
repeated the task for a second time. For example, in the Executive Function
DCCS task (on manual page 183), there are 30
@wustl.edu
www.humanconnectome.org
From:hcp-users-boun...@humanconnectome.org
on behalf of Xinyang Liu
Sent: Friday, June 29, 2018 3:50:06 AM
To: HCP 讨论组
Subject: [HCP-Users] Repeated measurement in HCP outscanner behavioral data
Dear HCP experts,
Hi. We are looking at the HCP battery of behavioral me
Dear HCP experts,
Hi. We are trying to compute resting state fMRI connectivity between several
ROIs for single individuals. The surface ROIs (.func.gii) were acquired from
task fMRI data. The plan is to compute the averaged rfMRI timeseries within
each ROI, and then compute their
ormalizing, and
concatenating across the runs in each subject—see wb_shortcuts).
Matt.
From: on behalf of Xinyang Liu
Date: Friday, September 21, 2018 at 4:00 AM
To: HCP 讨论组
Subject: [HCP-Users] rfMRI connecitivity
Dear HCP experts,
Hi. We are trying to compute resting state fMRI co
l file.
Tim
On Fri, Sep 21, 2018 at 7:22 AM, Xinyang Liu wrote:
Dear Matt,
Thank you very much for your prompt reply.
I will have a try according to your suggestions.
Best regards,
Xinyang
At 2018-09-21 19:37:13, "Glasser, Matthew" wrote:
1.
${StudyFolder}/${Subject}/MNINonLi
Dear experts,
Hi again. :)
We have some questions about the behavioral data of S1200 subjects. We would
like to use the reaction time of some tfMRI tasks. We found that in the
released behavioral data file("unrestricted_xxx.csv"), only median_RT was
recorded for each task. We would like to
Dear HCP experts,
We're currently analyzing some of the behavioral data from your dataset and
have three short questions about the IRT-modelling and theta-score derivation
that is also mentioned in the "NIH Toolbox Scoring and Interpretation Guide".
To be able to build comparable scores
_
Greg Burgess, Ph.D.
Senior Scientist, Human Connectome Project
Washington University School of Medicine
Department of Psychiatry
Phone: 314-362-7864
Email: gburg...@wustl.edu
On Mar 12, 2019, at 7:44 AM, Xinyang Liu wrote:
Dear HCP experts,
Hi. We are currently analyzing the behavioral
Dear HCP experts,
Hi. We are currently analyzing the behavioral accuracy scores from the Working
Memory(WM) tfMRI task. However, we found an inconsistency between computed
accuracy scores from the WM trial-level raw data and the "WM_Task_2bk_*_Acc"
analyzed data columns in the integrated
Dear HCP experts,
Hi. We are very interested in your lifespan dataset. Currently, there are only
pilot data of 27 participants released. Do you have a timeline about when you
may release data of more participants? Thanks a lot. :)
Best regards,
Xinyang
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