ynic-users September 2011

ynic-users@ynic.york.ac.uk

3 participants
7 discussions

PS
by philip quinlan 30 Sep '11

30 Sep '11

PS. I should add that before you get carried away with the recent 'advice' by Nieuwenhuis et al. (2011, Nature Neuroscience) consult VIckers and Altman (2001)! ******************************************************************** Philip Quinlan E-Mail: ptq1(a)york.ac.uk Department of Psychology FAX: (01904) 323181 The University of York Tel: (01904) 320000 Ext. 3135 Heslington Direct : (01904) 323135 York YO10 5DD U.K. ********************************************************************

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Downtime for upgrade
by Mark Hymers 29 Sep '11

29 Sep '11

Hi, Just a final reminder that tomorrow morning starting at around 9am, the YNiC desktop, cluster and remote desktop systems will be undergoing upgrade work. We expect this to be complete by lunchtime, with the exception of the remote desktop service which may be out of action until next week. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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Fwd: [megcommunity] MSc/PhD Positions at Dalhousie University
by Gary Green 29 Sep '11

29 Sep '11

FYI ------------------ We are recruiting MSc and PhD students for a funded MEG study looking at neuronal connectivity and stroke recovery. Students will have the opportunity to undergo research through the Depts of Kinesiology or Psychology/Neuroscience at Dalhousie University in Halifax, Nova Scotia, Canada. This research project will capitalize on the spatiotemporal resolution of MEG to examine changes in connectivity within the sensorimotor network of individuals post-stroke. Specifically, the goal of this research is to ‘pave the road to post-stroke rehabilitation’. Identifying the ‘normal’ sensorimotor network and establishing the relationship between network re-organization and functional recovery will permit the development and implementation of treatments to direct brain recovery. With regard to the proposed research project, and in groups of non-disabled controls and patients post-stroke, our objectives include: 1. To establish the connectivity pattern of the ‘normal’ sensorimotor network and demonstrate the ability to detect changes within the network using an established motor learning paradigm 2. Using clinical measures of upper limb function, we will establish the relationship between the pattern of sensorimotor network connectivity and functional recovery in well and poorly recovered patients You can find more information at: http://myweb.dal.ca/sh539856/ If interested, please e-mail Dr. Shaun Boe (s.boe(a)dal.ca <mailto:s.boe@dal.ca>) or Dr. Tim Bardouille (tim.bardouille(a)nrc.ca <mailto:tim.bardouille@nrc.ca>). Best, Tim Bardouille. --------------------------------------------------------- Timothy Bardouille, PhD, Research Officer Laboratory for Clinical MEG NRC Institute for Biodiagnostics (Atlantic) Office: Halifax Infirmary 3900 - 1796 Summer Street Halifax, Nova Scotia B3H 3A7 Phone: 902-473-1865 Lab: 902-470-3936 Fax: 902-473-1851 ---------------------------------------------------------

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Fwd: [Eeglabnews] EEGLAB 10.2.5.5 now available - critical upgrade
by Gary Green 26 Sep '11

26 Sep '11

FYI These changes may be important if you are using EEGLAB for multiple subject analyses Gary -------- Original Message -------- Subject: [Eeglabnews] EEGLAB 10.2.5.5 now available - critical upgrade Date: Tue, 13 Sep 2011 09:43:48 +0200 From: Arnaud Delorme <arno(a)ucsd.edu> To: eeglabnews(a)sccn.ucsd.edu Dear EEGLAB users, New EEGLAB version 10.2.5.5 is now available. This is a critical update if you are using EEGLAB STUDY sets to process multiple subjects. This version fixes 3 important problems: - Plotting ERP and power spectral scalp topographies (a problem that appeared in EEGLAB 10.2.2.4 two months ago). You will not need to recompute anything. - Plotting ERSP data (for independent component clusters and channels) when a common baseline is being subtracted from the data (not the default option). You will not need to recompute anything. - Correctly computing component cluster ERSPs when independent components were selected using a residual variance threshold. Simply download the latest version of EEGLAB 10; upon opening a STUDY, a warning message will appear if you need to recompute ERSPs. EEGLAB 9.0.8.6 has also been updated. The list of all recent changes are available at: http://sccn.ucsd.edu/wiki/EEGLAB_revision_history We are constantly working on new test scripts to attempt to validate outputs for complex STUDY structures. Whenever you encounter a problem, please submit a bug report at http://sccn.ucsd.edu/eeglab/bugzilla. <http://sccn.ucsd.edu/eeglab/bugzilla> Thank you for using EEGLAB, A. Delorme

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Help with mri analysis
by philip quinlan 19 Sep '11

19 Sep '11

I have two related but different tasks - task A and task B. I find that when you do task A regions x, y, z light up and when you do task B regions x, y, z, and w light up. As we all know all regions of the brain light up to varying degrees regardless what's going on but what I want to be able to demonstrate is that w really is a region unique to task B. I should add the data for tasks A and B were collected under different conditions so no simple 'contrast' is possible. Any help gratefully received. Philip. ******************************************************************** Philip Quinlan E-Mail: ptq1(a)york.ac.uk Department of Psychology FAX: (01904) 323181 The University of York Tel: (01904) 320000 Ext. 3135 Heslington Direct : (01904) 323135 York YO10 5DD U.K. ********************************************************************

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YNiC Desktop and Cluster Upgrade
by Mark Hymers 09 Sep '11

09 Sep '11

Hi, On Friday 23rd September, we'll be upgrading the YNiC desktops and cluster machines to a new software release. The main changes are: * FSL 3.3 will no longer be available * FSL 4.1.4 will be upgraded to FSL 4.1.8 * The default Matlab version will move to 7.12 * python2.5 will move to python2.6 (2.5 will still be available but some modules may be missing) Unsupported software changes: * afni will be updated from 20101222 -> 20110610 * freesurfer 4.5 will no longer be available; 5.1 will be available instead (although possibly not immediately, we'll announce this at the time) This means that on the morning of Friday 23rd, there will be some disruption at YNiC and the remote desktop service will be unavailable. It is possible that the remote desktop service will remain unavailable for a couple of days after the migration in order to give us extra time to migrate it, although we are aiming to avoid this. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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[Fwd: [megcommunity] MEG research position]
by Gary Green 06 Sep '11

06 Sep '11

FYI Research assistant, Pittsburgh, Pennsylvania, USA ________________________________________ Employment Type: Full-time 24-month appointment as a Research Assistant Institution: Department of Neurological Surgery, University of Pittsburgh Medical Center, Pittsburgh, Pennsylvania, USA Available: September 1, 2011 Job description: A research assistant position is available with the UPMC MEG Brain Mapping Center (http://www.meg-brain-mapping.pitt.edu/index.html) at the University of Pittsburgh Medical Center in Pittsburgh, PA. The research will consist of using MEG to study the temporal dynamics of how brain regions interact, both in spontaneously (when people are at rest) and in the service of visual processing. Candidates will be expected to: • Analyze MEG data using advanced mathematical and computational methods some of which have been developed in house primarily using MATLAB • Assist in data collection from healthy volunteers and clinical groups • Assist in the preparation of manuscripts • Work independently and liaise between collaborating laboratories Qualifications: • Undergraduate or Masters degree in Psychology, Neuroscience, Mathematics, Physics, Computer Science, Mathematics, Engineering or related field • Strong organizational skills • Previous experience in computer programming (MATLAB experience preferred) • Previous experience in image/signal processing would be highly advantageous • Prior experience in neuroimaging data analysis would be a plus • Prior experience in working with clinical groups would be a plus Salary: Commensurate with Experience How to Apply: If interested, please send a CV, cover letter, and names of references to Dr. Avniel Ghuman, Department of Neurological Surgery, University of Pittsburgh Medical Center at ghumana(a)cnbc.cmu.edu. Applications will be considered until the position is filled. -- Gary Green

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ynic-users September 2011