Re: [HCP-Users] Postfix
Do you get an error message? Matt. On 12/21/18, 1:55 PM, "Moataz Assem" wrote: >Hi, > >I ran into the same problem while running the PostFix script. The ICA >directory does not contain a ComponentList.txt file but it does contain >Noise.txt and Signal.txt > >Is this a file that should have been created at some step during one of >the hcp_fix steps? > >Thanks > >Moataz > >-Original Message- >From: hcp-users-boun...@humanconnectome.org >[mailto:hcp-users-boun...@humanconnectome.org] On Behalf Of Glasser, >Matthew >Sent: 17 April 2018 23:18 >To: D0O0D ; hcp-users@humanconnectome.org >Subject: Re: [HCP-Users] Postfix > >Do you get an error message? > >Peace, > >Matt. > >On 4/17/18, 3:36 PM, "hcp-users-boun...@humanconnectome.org on behalf of >D0O0D" aruls...@gmail.com> wrote: > >>Dear HCP users, >> >>I fix and postfix running fine on one computer. This is a bottleneck >>though and would like to get it working on the rest of the grid. I¹m >>using basically the same settings from the box where it works, but I >>can¹t seem to get postfix to create these files: >> >>Noise.txt >>Signal.txt >>ComponentList.txt >> >>Any ideas? >> >>Thanks, >>Aaron >>___ >>HCP-Users mailing list >>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 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] Postfix
Hi, I ran into the same problem while running the PostFix script. The ICA directory does not contain a ComponentList.txt file but it does contain Noise.txt and Signal.txt Is this a file that should have been created at some step during one of the hcp_fix steps? Thanks Moataz -Original Message- From: hcp-users-boun...@humanconnectome.org [mailto:hcp-users-boun...@humanconnectome.org] On Behalf Of Glasser, Matthew Sent: 17 April 2018 23:18 To: D0O0D ; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Postfix Do you get an error message? Peace, Matt. On 4/17/18, 3:36 PM, "hcp-users-boun...@humanconnectome.org on behalf of D0O0D" wrote: >Dear HCP users, > >I fix and postfix running fine on one computer. This is a bottleneck >though and would like to get it working on the rest of the grid. I¹m >using basically the same settings from the box where it works, but I >can¹t seem to get postfix to create these files: > >Noise.txt >Signal.txt >ComponentList.txt > >Any ideas? > >Thanks, >Aaron >___ >HCP-Users mailing list >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 ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] Temporal signal to noise ratio of HCP subjects
Hi,
tSNR (and a fairly sophisticated variance partitioning) is available via the
“RestingStateStats” pipeline.
If you have the full sets of packages from HCP-YA, see the
${subject}/MNINonLinear/Results/${fMRIName}/${fMRIName}_Atlas_stats.txt file,
which includes a “tSNR” entry.
(Associated maps are available in the ${fMRIName}_Atlas_stats.dscalar.nii file).
Note that in the context of RestingStateStats, “tSNR” is defined as:
TSNR = MEAN ./ sqrt(UnstructNoiseVar);
i.e,. the noise estimate is derived from an estimate of the unstructured
(“gaussian”) noise; not simply the standard deviation of the time series.
See RestingStateStats.m for the full algorithmic details.
In terms of structural QC, take a look at this:
https://github.com/Washington-University/StructuralQC
and the “Data Quality” (lecture and practical portions) slides from the 2018
HCP Course, available here:
https://store.humanconnectome.org/courses/2018/exploring-the-human-connectome.php
cheers,
-MH
--
Michael Harms, Ph.D.
---
Associate Professor of Psychiatry
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 Aaron C
Date: Thursday, December 20, 2018 at 11:29 AM
To: "hcp-users@humanconnectome.org"
Subject: [HCP-Users] Temporal signal to noise ratio of HCP subjects
Dear HCP experts,
I am looking for temporal signal to noise ratio of the resting state data of
HCP subjects. Is that information available somewhere?
Also, is there any existing scene file to check GM/WM segmentation quality?
Thank you.
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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.
___
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