Yep, got it
Have a good time off and we will talk about projects for the summer.
-----Original Message-----
From: SPM (Statistical Parametric Mapping) [mailto:[log in to unmask]] On Behalf Of SPM automatic digest system
Sent: Friday, April 27, 2012 7:01 PM
To: [log in to unmask]
Subject: SPM Digest - 26 Apr 2012 to 27 Apr 2012 (#2012-119)
There are 16 messages totaling 949 lines in this issue.
Topics of the day:
1. smooth at group level?
2. ANNOUNCING THE INDI SUMMER OF SHARING 2012 - Data, Analytic Scripts &
More!
3. any difference between SPM5-DARTEL and SPM8-DARTEL? (2)
4. PhD Opportunity at University of Sussex
5. VBM8 GM/WM/CSF volume text file
6. subject effects in one-sample t-test (2)
7. necessity of Matlab to use SPM (4)
8. post doc positions available
9. Job Announcement - Research Associate (Postdoctoral) - University of
Wisconsin, Madison
10. Randomly sampled fMRI analysis (2)
----------------------------------------------------------------------
Date: Fri, 27 Apr 2012 03:26:09 +0100
From: "Stephen J. Fromm" <[log in to unmask]>
Subject: Re: smooth at group level?
Smoothing is linear in the data. Regression coefficients are (mostly--see below) linear in the data. So the short answer is that it should be fine.
There are some caveats, though. While OLS regression is linear in the data, SPM usually implements some fancy prewhitening which is presumably not linear in the data. (Though it's not clear this really matters much.)
------------------------------
Date: Fri, 27 Apr 2012 05:41:26 +0100
From: "Michael P. Milham" <[log in to unmask]>
Subject: ANNOUNCING THE INDI SUMMER OF SHARING 2012 - Data, Analytic Scripts & More!
THE INTERNATIONAL NEUROIMAGING DATA-SHARING INITIATIVE (INDI) SUMMER OF SHARING 2012 http://fcon_1000.projects.nitrc.org/
Open science initiatives are transforming the neuroimaging community. Researchers who once struggled to obtain 20-30 datasets now have unrestricted access to thousands of scans, including data obtained from developing, aging and clinical populations. Equally important, the sharing of data analysis scripts and code is becoming increasingly common, thereby enhancing the dissemination of knowledge and capabilities among laboratories – as well as facilitating replication efforts. Although exciting, we are only at the beginning. The success of open science initiatives remains dependent upon continued community participation.
Against this background, the International Neuroimaging Data-sharing Initiative (INDI) is pleased to announce the launch of its 2012 Summer of Sharing – an effort dedicated to the sustenance and acceleration of data and analytic resource sharing among imaging community members. In order to accomplish its goal the INDI Summer of Sharing initiative is requesting pledges for the contribution of:
1) DATA: Resting state fMRI and/or diffusion data employed in published studies, along with any available meta-data you’d like to share (See INDI Retro for previously shared datasets; examples include Kelly C. et al., 2011 Bio Psych, Keller C. et al., 2011 PNAS, and Power J. et al., 2012 Neuroimage).
2) ANALYTIC RESOURCES: Python, Matlab, BASH, C/C++ - we’re not choosy! INDI is actively promoting the sharing of analytic scripts and codes employed in published and/or ongoing studies through NITRC and GitHub – if you post them, we’ll help to make sure you’re recognized for it.
3) OPEN SCIENCE EVENTS: Just provide us the information and we’ll help to get the word out!
4) MISCELLANEOUS RESOURCES: Atlases, parcellation schemes, reference resources, etc. – everyone can benefit from them.
We are actively asking investigators around the world to get involved in the sharing process. Already, the following resources are scheduled for sharing this summer:
1) The Autism Brain Imaging Data Exchange (ABIDE): a global, multisite consortium of laboratories dedicated to the study of autism that will release an aggregate dataset that is expected to consist of nearly 500 individuals with autism, and their matched typically developing controls.
2) The Enhanced NKI Rockland Sample: a recently launched large-scale, R-fMRI and DTI cross-sectional, community ascertained sample of individuals between 6 and 85 years of age, accompanied by a deep phenotypic protocol that broadly samples psychiatrically relevant behavioral domains.
3) Brainhack: a Neuro-Bureau resource (http://brainhack.org/) that points to collaborative projects in the field; the resource will be complemented by the Brainhack 2012 Unconference – a workshop that will blend the “unconference” and “hackathon” concepts to create a unique collaborative experience for participants interested in advancing analytic techniques and resources for functional and structural imaging.
4) The Configurable Pipeline for the Analysis of Connectomes (C-PAC): Building on the success of the release of the 1000 Functional Connectomes Project analysis scripts, the INDI team will be releasing a plug-and-play Nipype-based pipeline package that is easily configurable to accomplish a broad array of resting-state fMRI analyses.
5) DPARSF and REST: With the new releases of MATLAB-based user-friendly pipelines of Data Processing Assistant for Resting-State fMRI (DPARSF 2.2) and Resting-State fMRI Data Analysis Toolkit (REST 1.8) (www.restfmri.net), users can acquire resting-state fMRI measures efficiently (by parallel computing) and conveniently (by GUI or command line).
6) Power et al. 2011 (Neuron): The authors are now sharing the summary community assignments from their work on fcMRI networks (http://sumsdb.wustl.edu/sums/directory.do?id=8293343&dir_name=power_Neuron11), and will release a suite of scripts through NITRC this summer, so that others can replicate these analyses and carry out related work. Additionally, later this summer, the dataset used for this work will be released through INDI.
7) The Child Mind Institute (CMI) Librarian Initiative: Comprehensive hand-vetted and sorted reference libraries for various literatures, including Resting State fMRI and Diffusion Tensor Imaging are now available via Mendeley, with monthly updates scheduled (http://www.mendeley.com/profiles/cmi-librarian/).
It is our hope that this list is just the beginning. We will follow with updates throughout the summer months. The success of open science depends on all of us – so get involved, and Share That Brain!
Contact us at [log in to unmask] to make a pledge or learn more about how to get involved.
The International Neuroimaging Data-sharing Initiative (INDI) is now sponsored by the Child Mind Institute (http://childmind.org).
------------------------------
Date: Fri, 27 Apr 2012 16:49:07 +1000
From: Haobo Zhang <[log in to unmask]>
Subject: any difference between SPM5-DARTEL and SPM8-DARTEL?
Dear SPMers,
I had used the DARTEL toolbox of SPM5 to process T1 data. Now I plan to process a new batch of T1 data with the DARTEL toolbox of SPM 8.
But I do not know if there is any differences between the two versions of DARTEL, and if it can cause prominent differences in image registration and segmentation? Could you please enlighten me on that?
Many thanks!
Best regards,
Haobo
--
Dr. Haobo Zhang
School of Psychiatry, Faculty of Medicine University of New South Wales Sydney, Australia
------------------------------
Date: Fri, 27 Apr 2012 10:51:19 +0100
From: Neil Harrison <[log in to unmask]>
Subject: PhD Opportunity at University of Sussex
Applications are invited for a 3.5 year PhD studentship to join the Clinical Imaging Science Centre (CISC) at the University of Sussex Campus. This studentship is funded by Brighton & Sussex Medical School.
The aim of the project is to develop novel multi-modal imaging techniques to study adult Attention Deficit Hyperactivity Disorder (ADHD). ADHD is a developmental disorder characterised by hyperactivity, impulsivity and inattention. Stimulant medications which increase brain dopamine levels markedly improve symptoms in approximately 70% of patients. Precise mechanisms of action remain uncertain, however dysfunction within distributed deep-brain-cortical loops linking to dopamine rich regions in the mid-brain are central to all current neurophysiological models of ADHD. Neuroimaging studies partially support these theories; however the investigations carried out to date have important limitations. Firstly, relatively few have been conducted in adults. Secondly, due to poor contrast resolution none has been able to image critical dopamine rich mid-brain regions.
This project will optimise Magnetisation Transfer (MT) imaging (which provides excellent contrast resolution of deep grey matter structures) to characterise brain structural abnormalities in adults with ADHD. These images will then be used to inform structural and functional connectivity analyses of these regions and to investigate the effects of stimulant medication on functional connectivity. Participants will be recruited from a large database of ADHD patients seen locally. Together these studies will offer potentially unique insights into the role of dopamine rich mid-brain connectivity in ADHD and modulatory effects of stimulant medications.
This PhD will provide an outstanding training in a wide range of cutting edge imaging techniques (both functional and structural) as well as more general research methodologies. The successful candidate will be encouraged to present findings at international, national and local research conferences. The combination of a rigorous training in MR imaging techniques and application to a clinical population will provide the successful candidate with an excellent training in translational imaging research and make them a highly competitive candidate for future postdoctoral research positions, in the field of neuroscience and medical imaging.
We aim to attract the highest quality numerate graduates who are motivated to apply their skills to neuroimaging research questions.
Funding Notes:
Applicants for this 3.5 year Brighton & Sussex Medical School funded PhD starting October 2012 should possess or expect to be awarded a minimum of a First or Upper Second Class Honours degree (or equivalent) in physics, engineering, bio-engineering, physiology, neuroscience, psychology, maths, computer science and statistics or similar discipline.
Both UK/EU citizens can apply (home fees will be paid for either UK/EU citizens). Informal enquiries to Prof. Mara Cercignani ([log in to unmask]) or Dr Neil Harrison ([log in to unmask]). To apply please download an application form and referee forms from (bsms.ac.uk/postgraduate/research-degrees/phd-opportunities) or contact the BSMS Research Degrees Administrator: Nichola Mayer ([log in to unmask])
References:
Helms G, Draganski B, Frackowiak R, Ashburner J, Weiskopf N (2009). Improved segmentation of deep brain grey matter structures using magnetization transfer (MT) parameter maps. Neuroimage 47(1):194-8.
Cercignani M, Symms MR, Schmierer K, Boulby PA, Tozer DJ, Ron M, Tofts PS, Barker GJ (2005). Three-dimensional quantitative magnetisationtransfer imaging of the human brain. Neuroimage 27(2); 436-441.
Radulescu E, Ganeshan B, Minati L, Beacher F, Gray MA, Chatwin C, Young R, Harrison NA, Critchley HD (2012). Gray matter textural heterogeneity as a potential in-vivo biomarker of fine structural abnormalities in Asperger syndrome. The Pharmacogenomics Journal,doi:10.1038/tpj.2012.3
------------------------------
Date: Fri, 27 Apr 2012 11:31:48 +0100
From: Christian Gaser <[log in to unmask]>
Subject: Re: VBM8 GM/WM/CSF volume text file
Dear Anna,
the volumes in the text files are given in ml and are independent from voxel size.
Regards,
Christian
On Thu, 26 Apr 2012 13:31:41 +0000, Dzieciol, Anna <[log in to unmask]> wrote:
>Dear All,
>
>Are the volumes in text files created during segmentation adjusted for voxel size? Will I be able to compare intracranial volumes between scans with different voxel sizes (e.g 1x1x1 and 1x1x1.5)?
>
>All the best
>
>Anna
>
>
>
>
>
>
>_____________
>Anna Dzieciol
>PhD student
>DCNU
>UCL Institute of Child Health
>020 7905 2314
>[log in to unmask]
>
>
------------------------------
Date: Fri, 27 Apr 2012 10:43:23 +0000
From: Richard Morris <[log in to unmask]>
Subject: subject effects in one-sample t-test
Dear list,
I've noticed a change in the one-sample t-test design matrices produced by SPM8 compared to SPM5. I seem to remember SPM5 used to (automagically?) include subject effects, with columns for each subject in the design matrix, but SPM8 doesn't do that anymore. Is there a setting change I can make to reintroduce subject effects in my design matrix?
On a related note, is there any reason not to include the global covariate (ANCOVA) in a one-sample t-test of fMRI data? I've noticed I often get more regionally specific activation with higher t-values in my results when I include the global covariate. I'm guessing this is because of subject-specific effects which I would like to remove/minimise.
Best,
Rich
------------------------------
Date: Fri, 27 Apr 2012 14:09:15 +0200
From: "Istace, Audrey" <[log in to unmask]>
Subject: necessity of Matlab to use SPM
Hi!
I am very interested in SPM method but I have never used it.
My first question is to know if purchasing Matlab license is absolutely essential to use it. Is it possible to run SPM without Matlab (using C language for example) ?
Thank you very much.
Best regards,
Audrey
--
Confidentiality Notice: This e-mail transmission may contain confidential or legally privileged information that is intended only for the individual or entity named in the e-mail address. If you are not the intended recipient, you are hereby notified that any disclosure, copying, distribution, or reliance upon the contents of this e-mail is strictly prohibited. If you have received this e-mail transmission in error, please reply to the sender and then delete the message from your computer. Thank you.
--
------------------------------
Date: Fri, 27 Apr 2012 13:28:44 +0100
From: John Ashburner <[log in to unmask]>
Subject: Re: any difference between SPM5-DARTEL and SPM8-DARTEL?
There are many differences between the versions. The one in SPM5 was quite an early prototype, and a few bugs were fixed for the version in SPM8, along with the addition of some useful functionality.
Similarly, the New Segment in SPM8 is very different from the unified segmentation in SPM5.
The best way to see if there are differences that you would consider significant would be to run the two versions on the same dataset.
Best regards,
-John
On 27 April 2012 07:49, Haobo Zhang <[log in to unmask]> wrote:
> Dear SPMers,
>
> I had used the DARTEL toolbox of SPM5 to process T1 data. Now I plan
> to process a new batch of T1 data with the DARTEL toolbox of SPM 8.
> But I do not know if there is any differences between the two versions
> of DARTEL, and if it can cause prominent differences in image
> registration and segmentation? Could you please enlighten me on that?
> Many thanks!
>
> Best regards,
> Haobo
>
>
> --
>
> Dr. Haobo Zhang
> School of Psychiatry, Faculty of Medicine University of New South
> Wales Sydney, Australia
>
>
------------------------------
Date: Fri, 27 Apr 2012 14:42:42 +0200
From: "Istace, Audrey" <[log in to unmask]>
Subject: Re: necessity of Matlab to use SPM
I apologize for this second mail, but I am not sure I have been clear in my previous message.
I think some methods implemented in Matlab can be used without Matlab, using the MCR (Matlab Component Runtime) and a .exe, and I was wondering if this alternative existed with SPM method.
Many thanks.
Best regards,
Audrey
-----Original Message-----
From: Istace, Audrey
Sent: Fri 4/27/2012 2:09 PM
To: [log in to unmask]
Subject: necessity of Matlab to use SPM
Hi!
I am very interested in SPM method but I have never used it.
My first question is to know if purchasing Matlab license is absolutely essential to use it. Is it possible to run SPM without Matlab (using C language for example) ?
Thank you very much.
Best regards,
Audrey
--
Confidentiality Notice: This e-mail transmission may contain confidential or legally privileged information that is intended only for the individual or entity named in the e-mail address. If you are not the intended recipient, you are hereby notified that any disclosure, copying, distribution, or reliance upon the contents of this e-mail is strictly prohibited. If you have received this e-mail transmission in error, please reply to the sender and then delete the message from your computer. Thank you.
--
------------------------------
Date: Fri, 27 Apr 2012 15:01:20 +0100
From: Peter Bandettini <[log in to unmask]>
Subject: post doc positions available
The Section on Functional Imaging Methods, in the Laboratory of Brain and Cognition, at The National Institute of Mental Health (NIMH) invites applications for a post doctoral position. The overriding theme in the Section research is the development of fMRI methods towards the robust assessment/classification of individual subjects and, ultimately, to establish fMRI into the clinical arena. Ongoing research includes: 1) Development of novel resting state connectivity acquisition and processing methods as well as applications, 2) Development of novel fMRI decoding methods, 3) Elucidation of the relationship between neuronal activity and functional MRI contrast, 4) Exploration of the limits of neuronal, physiologic, and hemodynamic information that is obtainable using fMRI, 5) Development of novel pulse sequences for quantitative physiologic information extraction and enhanced utility of fMRI methods, 6) Exploration of low level visual, motor, auditory, and sensory processing with fMRI, and 7) Development of paradigms and applications of real time fMRI.
Fellowships include full stipend support plus research and travel expenses for up to five years. Basic facilities include Four 3 Tesla scanners, (2 GE HDx, 1 GE MR750, and 1 Siemens Skyra), a Siemens 7T human scanner and access to an 11.7 T human scanner and a 4.7T / 60 cm vertical bore primate scanner. Extensive image acquisition, computational, and general technical support is provided. It is expected that fellows have experience with fMRI methods development, fMRI contrast mechanism research, and/or psychophysical experimentation methods. Please submit via email or regular mail, an application letter, CV, and three letters of recommendation to Dr. Peter A. Bandettini, [log in to unmask], National Institute of Mental Health, Building 10, 10 Center Dr. Rm 1D80b, MSC 1148, Bethesda, MD 20892. DHHS and NIH are equal opportunity employers.
------------------------------
Date: Fri, 27 Apr 2012 10:24:40 -0400
From: "MCLAREN, Donald" <[log in to unmask]>
Subject: Re: subject effects in one-sample t-test
(1) If you include a column for each subject in a one-sample t-test, then the group effect will always have a t-statistic of Inf. This results from the residual being 0. As far as I know, this was never done in SPM5.
(2) I do not have a strong opinion on this, except to say that your contrast will no longer be comparing TaskA v. TaskB or TaskA v.
baseline. Rather, you will be comparing the globally-adjusted contrast.
(3) What subject-specific are you referring to?
From the wording in your email, it seems like you might be using multiple measurements per subject. In this case, you should not be using a one-sample t-test.
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
=====================
This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773)
406-2464 or email.
On Fri, Apr 27, 2012 at 6:43 AM, Richard Morris <[log in to unmask]> wrote:
> Dear list,
>
> I've noticed a change in the one-sample t-test design matrices produced by SPM8 compared to SPM5. I seem to remember SPM5 used to (automagically?) include subject effects, with columns for each subject in the design matrix, but SPM8 doesn't do that anymore. Is there a setting change I can make to reintroduce subject effects in my design matrix?
>
> On a related note, is there any reason not to include the global covariate (ANCOVA) in a one-sample t-test of fMRI data? I've noticed I often get more regionally specific activation with higher t-values in my results when I include the global covariate. I'm guessing this is because of subject-specific effects which I would like to remove/minimise.
>
> Best,
>
> Rich
------------------------------
Date: Fri, 27 Apr 2012 10:29:33 -0700
From: Dennis Thompson <[log in to unmask]>
Subject: Re: necessity of Matlab to use SPM
Here is a page with links to various projects using SPM EEGLAB and FieldTrip with Octave instead of Matlab.
http://en.wikibooks.org/wiki/SPM/Octave
On Fri, Apr 27, 2012 at 5:42 AM, Istace, Audrey <[log in to unmask]> wrote:
>
> I apologize for this second mail, but I am not sure I have been clear
> in my previous message.
>
> I think some methods implemented in Matlab can be used without Matlab,
> using the MCR (Matlab Component Runtime) and a .exe, and I was
> wondering if this alternative existed with SPM method.
>
> Many thanks.
>
> Best regards,
>
> Audrey
>
>
>
> -----Original Message-----
> From: Istace, Audrey
> Sent: Fri 4/27/2012 2:09 PM
> To: [log in to unmask]
> Subject: necessity of Matlab to use SPM
>
>
> Hi!
>
> I am very interested in SPM method but I have never used it.
>
> My first question is to know if purchasing Matlab license is
> absolutely essential to use it. Is it possible to run SPM without
> Matlab (using C language for example) ?
>
> Thank you very much.
>
> Best regards,
>
> Audrey
>
>
> --
> Confidentiality Notice: This e-mail transmission may contain
> confidential or legally privileged information that is intended only
> for the individual or entity named in the e-mail address. If you are
> not the intended recipient, you are hereby notified that any
> disclosure, copying, distribution, or reliance upon the contents of
> this e-mail is strictly prohibited. If you have received this e-mail
> transmission in error, please reply to the sender and then delete the message from your computer. Thank you.
> --
------------------------------
Date: Fri, 27 Apr 2012 11:53:19 -0600
From: Tren Huang <[log in to unmask]>
Subject: Re: necessity of Matlab to use SPM
Check out this page as well:
http://en.wikibooks.org/wiki/SPM/Standalone
Tren
On Fri, Apr 27, 2012 at 11:29 AM, Dennis Thompson <[log in to unmask]> wrote:
> Here is a page with links to various projects using SPM EEGLAB and
> FieldTrip with Octave instead of Matlab.
>
> http://en.wikibooks.org/wiki/SPM/Octave
>
>
> On Fri, Apr 27, 2012 at 5:42 AM, Istace, Audrey
> <[log in to unmask]> wrote:
>>
>> I apologize for this second mail, but I am not sure I have been clear
>> in my previous message.
>>
>> I think some methods implemented in Matlab can be used without
>> Matlab, using the MCR (Matlab Component Runtime) and a .exe, and I
>> was wondering if this alternative existed with SPM method.
>>
>> Many thanks.
>>
>> Best regards,
>>
>> Audrey
>>
>>
>>
>> -----Original Message-----
>> From: Istace, Audrey
>> Sent: Fri 4/27/2012 2:09 PM
>> To: [log in to unmask]
>> Subject: necessity of Matlab to use SPM
>>
>>
>> Hi!
>>
>> I am very interested in SPM method but I have never used it.
>>
>> My first question is to know if purchasing Matlab license is
>> absolutely essential to use it. Is it possible to run SPM without
>> Matlab (using C language for example) ?
>>
>> Thank you very much.
>>
>> Best regards,
>>
>> Audrey
>>
>>
>> --
>> Confidentiality Notice: This e-mail transmission may contain
>> confidential or legally privileged information that is intended only
>> for the individual or entity named in the e-mail address. If you are
>> not the intended recipient, you are hereby notified that any
>> disclosure, copying, distribution, or reliance upon the contents of
>> this e-mail is strictly prohibited. If you have received this e-mail
>> transmission in error, please reply to the sender and then delete the message from your computer. Thank you.
>> --
------------------------------
Date: Fri, 27 Apr 2012 18:57:30 +0100
From: "Michael J. Anderle" <[log in to unmask]>
Subject: Job Announcement - Research Associate (Postdoctoral) - University of Wisconsin, Madison
Job Announcement
Research Associate (Postdoctoral)
Center for Investigating Healthy Minds at the Waisman Center University of Wisconsin, Madison
Director: Richard J. Davidson
The Center for Investigating Healthy Minds at the Waisman Center invites highly motivated candidates to apply for a postdoctoral research position in the laboratory of Dr. Richard J. Davidson, a globally recognized leader in the fields of affective and contemplative neuroscience. The person in this position will take on a key role in an interdisciplinary translational research project to cultivate mindfulness, compassion and attention in middle school children using behavioral and neuroimaging measures. The project will evaluate the hypothesis that systematic playing of attention and social collaboration games will produce beneficial changes in a number of measures including: brain function, performance on cognitive tasks of attention & working memory, the perception of social cues, and the propensity to share and behave altruistically. This project will expose the successful candidate to novel intersections of disciplines and methodologies. This position will be responsible for the day-to-day supervision of research staff as well as the coordination of data collection and analysis. Additionally the candidate will generate, analyze and interpret research results and prepare scientific manuscripts for publication.
The required qualifications include a PhD in Psychology, Neuroscience or related field. An interest in the effect of computer video games on prosocial outcomes in children is essential. The ideal candidate will have previous research experience in structural, fMRI and / or DTI neuroimaging techniques and a broad interest in social, affective and contemplative neuroscience. Required foundational skills / experience include scientific programming, competence in using UNIX & LINUX computer systems and a solid knowledge of statistics. In addition, the successful candidate will have relevant experience in at least one of the following areas: developmental psychology, intervention research, educational games, contemplative or affective neuroscience.
Interested applicants should send Curriculum Vitae to [log in to unmask]
------------------------------
Date: Fri, 27 Apr 2012 15:39:36 -0500
From: xue yang <[log in to unmask]>
Subject: Randomly sampled fMRI analysis
Hi,
We consider sampling fMRI randomly in non-regular rates (or randomly miss some scans). How can we use spm on these dataset for 1st level fMRI analysis?
Thanks,
--
Xue Yang
Electrical Engineering
Vanderbilt University
------------------------------
Date: Fri, 27 Apr 2012 17:09:27 -0400
From: "MCLAREN, Donald" <[log in to unmask]>
Subject: Re: Randomly sampled fMRI analysis
"non-regular" states --> I don't think this is possible.
skipping some scans --> you could insert blank scans for the missed scans, then add a column with a 1 for the scan; repeat for all skipped scans
One caveat: Missing scans will effect the magnetization equilibrium.
There really is no good way to correct for this issue.
Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Postdoctoral Research Fellow, GRECC, Bedford VA Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
=====================
This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773)
406-2464 or email.
On Fri, Apr 27, 2012 at 4:39 PM, xue yang <[log in to unmask]> wrote:
> Hi,
>
> We consider sampling fMRI randomly in non-regular rates (or randomly
> miss some scans). How can we use spm on these dataset for 1st level
> fMRI analysis?
>
> Thanks,
>
> --
> Xue Yang
> Electrical Engineering
> Vanderbilt University
>
------------------------------
End of SPM Digest - 26 Apr 2012 to 27 Apr 2012 (#2012-119)
**********************************************************
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