External Email - Use Caution
Apologies, that was a bad example! Yes, like you said we want to have two variables (one binary & one continuous) that represent different aspects of the same stimulus.
We’re wondering if we can rescale the values to incorporate both responses – do you know whether Freesurfer allows negative modulation values in the par files? We would essentially make negative values represent the valence ratings of stimuli with “no” responses and positive values represent those with “yes” responses.
Additionally, do you have any advice for debugging the “design is ill-conditioned” error we received before? We still don’t know why our XCond was calculated to be so high at 5.45e16.
Here was our setup:
1 SelfRelevant (=1, included only for trials rated as self-relevant)
2 ValenceOffset (=1, included only for trials rated as self-relevant)
3 ValenceSlope (=valence rating)
4 SelfIrrelevant (=1, included only for trials rated as self-IRrelevant)
5 ValenceOffset (=1, included only for trials rated as self-IRrelevant)
6 ValenceSlope (=valence rating)
0 Other
0 Case
0 Fixation
Thank you very much for your continued help!
------------------------------
Message: 2
Date: Tue, 27 Sep 2022 09:51:58 -0400
From: "Douglas N. Greve" <dgreve(a)mgh.harvard.edu>
Subject: Re: [Freesurfer] FSFAST first level covariates
To: freesurfer(a)nmr.mgh.harvard.edu
Message-ID: <d4a6ad9a-6463-6e7e-1c19-e951622915e7(a)mgh.harvard.edu>
Content-Type: text/plain; charset="utf-8"
See https://secure-web.cisco.com/1p1LwpSgcETesv4kjUKw_dC03qPRgQywmg0EAB7vjcgsoO…<https://secure-web.cisco.com/18_XTBGtGCKWwG3rq2kI81hxXtDx-uxj7639kO0xJN6cc4…>
where group1=female, group2=male, and variable=age
On 9/26/2022 10:45 PM, Emily Iannazzi wrote:
>
> ????????External Email - Use Caution
>
> Hi Doug,
>
> Thanks for the reply! We basically want to test an equation like y =
> age + sex + age*sex. How would you set up the par files for that?
>
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> *Subject:* Freesurfer Digest, Vol 223, Issue 39
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> ?? 1. Re: Running v7 with recon-all v6 files (fsbuild)
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> ?? 3. Re: Error (fsbuild)
> ?? 4. dcmunpack (O'Dor, Sarah,PHD)
> ?? 5. Re: Fwd: Error (Douglas N. Greve)
> ?? 6. Re: dcmunpack (Douglas N. Greve)
> ?? 7. Re: FSFAST first level covariates (Douglas N. Greve)
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> ----------------------------------------------------------------------
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> Message: 1
> Date: Fri, 23 Sep 2022 08:00:38 +0200
> From: fsbuild <fsbuild(a)contbay.com>
> Subject: Re: [Freesurfer] Running v7 with recon-all v6 files
> To: freesurfer(a)nmr.mgh.harvard.edu
> Cc: brouillard.alexandra(a)gmail.com
> Message-ID: <9bf58e7024ed99c7c06379a6876dda10(a)trashmail.com>
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> ??????? External Email - Use Caution
>
> Hello Alexandra
> Please let us know if you are on an Intel or a
> newer Mac with an arm processor, e.g., M1, M2 chip. You could send
> along a screen shot of what "About this Mac" displays.
> Per the "Important Note" at the bottom of the freesurfer release page,
> *MailScanner has detected a possible fraud attempt from
> "secure-web.cisco.com" claiming to be*
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> <https://secure-web.cisco.com/1xGoLsU1v9x_WJOz_jz46yX4Kqn77z6kQ5d1UM97vcLfuM… >
> , you may not get exactly the same (floating point) results when
> running v6 on a different/newer version of MacOS.
>
> - R.
>
>
> On 9/22/22 09:36, Alexandra Brouillard
> (brouillard.alexandra(a)gmail.com) wrote:
>
>
>
>
>
>
>
> External Email - Use
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>
> Hi
>
> I ran recon-all on an external server using the version 6. I recently
> downloaded the v6 on my Mac v12.6.
> ?I was able to set a home directory but get a ?permission denied?
> ?error when typing ?$FREESURFER_HOME? (but have the permissions/sudo). I
> ?also can?t open Freeview: by double clicking on the app, the GUI
> crashes, or by typing ?freeview? in the terminal
> ?I get a PETSC error.
> According
> ?to some previous forum threads, I?m thinking of downloading the v7 but
> would like to validate that it?s OK when using recon-all v6
> ?files.
>
> Thank you for your support,
>
> Alexandra
>
>
>
>
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External Email - Use Caution
Postdoc Position in Social and Affective Neuroscience
The Jiang Lab at University of Iowa Carver College of Medicine (PI: Dr. Jing Jiang, https://secure-web.cisco.com/1kOcSJkyo1xCVO1eLJX_lrVfYy2-aYQoxsJT_jedzPuGSI… ) is looking for a two-year postdoctoral fellow (with a possibility of extension) to conduct social and affective neuroscience research. Research topics are flexible and could include: (1) determining causal neural circuits relevant to social and emotional deficits and treatment effects using brain lesion or brain stimulation methods (transcranial magnetic stimulation [TMS], intracranial electrical stimulation [es]) in combination with neuroimaging methods (e.g., functional magnetic resonance imaging [fMRI], intracranial electroencephalography [iEEG]) in neuropsychiatric/neurological populations, (2) identifying neuromarkers of social and emotional skills acquisition during typical and atypical development using functional near-infrared spectroscopy [fNIRS] in infants and children. We are an interdisciplinary team and welcome applicants from various research backgrounds!
Our lab is situated in the Departments of Pediatrics and Psychiatry and maintains active collaborations with faculty and teams from the Departments of Neurology, Neurosurgery, Psychological and Brain Sciences, and Biomedical Engineering at the University of Iowa, the Iowa Neuroscience Institute, and the Intellectual and Developmental Disabilities Research Center. The lab has access to the University of Iowa’s cutting-edge imaging facility (https://secure-web.cisco.com/1_kdTAIej9w2FpqXquWutkqCb3drPeo_FKTxkOdm2lvaav…) the world-renowned Iowa Neurological Patient Registry including neuroimaging and neuropsychological testing data from over 3500 patients with focal brain lesions, as well as state-of-the-art portable fNIRS, concurrent TMS-fMRI, concurrent TMS-iEEG, and concurrent es-fMRI systems.
The University of Iowa (UI) is an internationally recognized leader in neuropsychology and cognitive neuroscience. The UI Roy J. and Lucille A. Carver College of Medicine is consistently one of the nation’s top-ranked medical schools (#39 on research by the 2022 U.S. News & World Report). The UI Stead Family Children’s Hospital is listed among the nation’s best in seven specialties in the 2022-23 “Best Children’s Hospitals” rankings by U.S. News & World Report (#38 in pediatrics neurology).
Iowa City ranks among the best places to live in America (e.g., #1 Best College Town by Reviews.org) Iowa City, Johnson County, and the state of Iowa all routinely appear on national “best of” lists for low cost of living, safety, access to world-class health care, and more.
Responsibilities and what you will achieve
The goal of postdoctoral training in our lab is to help you become an independent researcher. To achieve this goal, you will work with Dr. Jiang to develop a plan (e.g., independent projects, mentorship experience, grant application, job hunts, networking) that meets your career development. You will receive theoretical and methodological training and resources through ongoing projects and independent projects, mentor students and research assistants, publish impactful papers, and apply for eligible research grants. You will be provided networking opportunities and guidance for job hunts.
Required Qualifications
- PhD or MD/PhD degree in Psychology, Neuroscience, Cognitive Science, Computer Science, electrical or biomedical engineering, or a related field
- A track record of peer-reviewed scientific journal publications in human neuroscience
Desired Qualifications
- Experience with scripting/programming languages (preferable MATLAB and/or Python)
- Experience with one or several of the following human neuroscience techniques: fNIRS, fMRI, iEEG, TMS, brain lesion, etc.
- Self-motivated, able to work independently, strong written and interpersonal communication skills
To apply, please submit (1) a cover letter describing your research interests and (2) your CV to https://secure-web.cisco.com/1qCAntHvjWTUZfmZIXhWSQ59arE0CmdqxLsfd5NoPQjZUu… and you may email Dr. Jing Jiang (jing-jiang(a)uiowa.edu) please attach (1) cover letter and (2) your CV. Applications will be reviewed on a rolling basis until the position is filled. Start date is flexible depending on candidate availability.
Thank you very much for your attention!
Jing Jiang, PhD
Assistant Professor (she/her/hers)
Departments of Pediatrics and Psychiatry |
Iowa Neuroscience Institute |
Iowa's Hawkeye Intellectual and Developmental Disabilities Research Center (Hawk-IDDRC)
W270 GH, 200 Hawkins Dr, Iowa City, Iowa 52242
Twitter<https://secure-web.cisco.com/1koMaJk-i1w7PMVqaqY0nTka_w8nZK-juZUlmjWSW1zhsP…> Lab Website<https://secure-web.cisco.com/1kOcSJkyo1xCVO1eLJX_lrVfYy2-aYQoxsJT_jedzPuGSI…>
[1658344624806]
