- ynic-users

Stimulus delivery - PRESENTATION will be removed from stim PCs
by Andre Gouws 17 Aug '17

17 Aug '17

As there has been practically no use of the Presentation stimulus delivery software package at YNiC over the past 12 months, we are not intending to renew the five licenses we currently purchase annually. As such, Presentation will no longer be available for use on the stimulus delivery PCs at YNiC after the centre IT upgrade next week. Please contact me if you have any queries. Thanks, -- André ************************************************************************ André Gouws PhD York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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This week at YNiC
by Andre Gouws 14 Aug '17

14 Aug '17

Hi all, No presentations this week, but the centre will be busy with the MSc CN project hand in deadline looming. Please note: * CENTRE CLOSURE Tuesday 21st - Friday 24th August. - A reminder that we are closed for part of next week for system upgrades. * RETURN OF SCREENING/CONSENT FORMS: With the reception works complete, please return all signed screening / general consent forms to the gray postbox next to the reception office door if the office is closed. * CENTRE ACCESS AND ALARMS: Keyholders should be aware that the main reception alarm will now be set when the centre is closed. If you are the first to enter, you will need to deactivate the alarm before opening the main shutter to the reception area. This alarm is in the cupboard immediately next to the key that opens the shutter. The alarm code is the same for all areas. -- If you have any queries please see a member of the team. -- André ************************************************************************ André Gouws York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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This week at YNiC
by Andre Gouws 07 Aug '17

07 Aug '17

Hi, No project presentations this week, so just a couple of reminders: * Reception services are back to normal at YNiC - please use the normal YNiC entrance again. * The servicing of the GE scanner was successful so we should be back up to "full speed" now. * ** DATES FOR YOUR DIARY ** - a reminder that the YNiC IT systems upgrade is scheduled for the week commencing Monday the 21st of August. There will be no scanning or access to computing facilities during that week. We will let you know if anything changes. -- André ************************************************************************ André Gouws PhD York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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Entering YNiC - reception refurbishment completed
by Andre Gouws 04 Aug '17

04 Aug '17

Hi all, Thank you for your patience and cooperation during the remodeling of the YNiC reception area. A few minor cosmetic issues aside, the work is now completed and we can start to use the reception area as just that! Please enter and leave YNiC via this area from now on rather than the Biocentre entrance, and instruct anyone taking part in your studies to do so too. Best wishes, -- André ************************************************************************ André Gouws York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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Project presentation today at YNiC
by Andre Gouws 03 Aug '17

03 Aug '17

A reminder that Richard Vernon will be giving a project presentation at 4pm today: "Curvature and angular-position shape manipulations". -- André ************************************************************************ André Gouws PhD York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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This week at YNiC
by Andre Gouws 31 Jul '17

31 Jul '17

Hi all, * Please join us at YNiC this Thursday at 4pm where there will be a project presentation by Richard Vernon entitled "Curvature and angular-position shape manipulations". * Thank you for you patience as the improvement works on the new reception area continue - we are awaiting the installation of some glass panels and then normal service will resume. Until further notice, please do continue to use the Biocentre entrance. * GE Scanner service: Some components of the image reconstruction hardware on the GE scanner are showing a fault and will need to be replaced on Thursday afternoon - the scanner is still in use and should perform normally for most users - just be aware that there may be a slightly longer delay between scans as the images are processed. Best wishes, -- André ************************************************************************ André Gouws York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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Brief Closure
by Antony Morland 25 Jul '17

25 Jul '17

Hi All, Pleas note the centre will be closed for all research scanning and analysis from 5pm, Monday 21st August until the end of the week. This is to upgrade our IT provision and perform annual maintenance. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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This week at YNiC
by Andre Gouws 24 Jul '17

24 Jul '17

Hi all, * Please join us at YNiC this Thursday at 4pm where there will at least 2 project presentations from the Smallwood / Jefferies Labs: "Understanding the gridlike encoding of associative information" - Deniz Vatansever "Understanding the neural basis of spontaneous thought" - Charlotte Murphy "TBC" - Jonny Smallwood * * Work on the YNiC reception continues this week, and we hope to resume service as usual ASAP. We will keep you updated but, for now, please continue to use the Biocentre entrance. -- André ************************************************************************ André Gouws PhD York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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Works at YNiC
by Antony Morland 17 Jul '17

17 Jul '17

Hello All, The work at YNiC has started this morning. Today's work will create a considerable amount of noise. I'll update you on when we anticipate other disruptions through the week. Sorry for any inconvenience. Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Matlab licenses in YNiC
by Joe Lyons 14 Jul '17

14 Jul '17

Hi We're still seeing issue with the Matlab license in YNiC. We're waiting to hear from IT Services and will update when we get more information. Thanks Joe

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Project rpoposal
by Antony Morland 13 Jul '17

13 Jul '17

Hello all, Apologies for the late notice - there will be a project proposal at 1030 today, not 4pm. This is due to a clash with a meeting in Psychology. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Closures
by Antony Morland 11 Jul '17

11 Jul '17

Dear All, We are planning some refurbishments to the YNiC reception. We are currently booked in for the start of the works 17th July. This work will mean that reception is not available and that entry to YNiC should be through the Biocentre doors. We hope to be able to honour scans booked, but please allow additional time to obtain the appropriate forms for your participants during the closure of reception as temporary arrangements will be in place that may cause delays. We also have a training course 18th July and will not be able to perform any scanning that day. Open plan will be open as usual, however. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Project presentation postponed to next week
by Antony Morland 06 Jul '17

06 Jul '17

Dear All, Apologies, I in a previous email I indicated a presentation would be made this week, which is, in fact, going to be held next week - 13th July at 4pm. Best wishes tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Potential closures and project presentations
by Antony Morland 04 Jul '17

04 Jul '17

Dear All, We are upgrading the reception area this month. The current date penciled in is the week commencing 17th July. Open plan will be accessible from the Biocentre entrance. Further announcements about potential interruption of scanning may be forthcoming, but at the moment research scanning can continue. We have a project presentation by Becca Kitching this week. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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mrVista - Population Receptive Field Mapping Workshop
by Marc Himmelberg 27 Jun '17

27 Jun '17

Hi All, I'd like to gather expressions of interest for those those who would be interested in attending a 'MrVista - Population Receptive Field Mapping' workshop at YNiC. For those of you not familiar with mrVista, it is a MATLAB interface for analysing functional and anatomical MRI data, based on the Vistasoft toolbox developed by Stanford University, whilst population receptive field (pRF) mapping is a form of retinotopic mapping, where we compute a model of pRFs and visual field maps within the visual cortex (Dumoulin, S. O., & Wandell, B. A. (2008). Population receptive field estimates in human visual cortex. *NeuroImage*, *39*(2), 647–660. https://www.ncbi.nlm. nih.gov/pmc/articles/PMC3073038/). The aim of the workshop is to familiarise yourself with fMRI analysis using mrVista and learn how to conduct visual field mapping using the pRF method - including data collection/running stimuli, structural processing and segmentation, pre-processing, running the model, localising visual field maps, and plotting data. The workshop will run over 3 days at YNiC open plan and each session will cover both theory and practical. All required data and software will be supplied. Dates scheduled are: *Monday 31st July* 9:30am - 5pm *Tuesday 1st August* 9:30am - 5pm *Monday 7th August* 9:30am - 5pm Please let me know if you are interested in attending or have any questions. Thanks. Best, Marc -- Marc Himmelberg PhD Student | ESR within NextGenVis ITN PS/C018, Department of Psychology University of York York, YO10 5DD UK

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project presentations
by Antony Morland 26 Jun '17

26 Jun '17

Hello All, We will have Rachel Woodall give a presentation about two upcoming projects this week (4pm Thursday 29th June). Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Large scale data sets
by Jonny Smallwood 04 Jun '17

04 Jun '17

Hello YNIC users, We are trying to gauge interest in the use of large scale data sets by users of the imaging centre. There are a growing number of open access data sets that contain data from large samples of participants with phenotypical data and a range of brain imaging measures (often resting state as well as task data). I have added links to two of these data sets that I have had experience using and publishing data from. It would be very helpful if users who thought that this kind of data would be beneficial to their ongoing work could get in contact with me. This would allow the centre to get a sense of how many people would be interested in using these types of data. Thanks, Jonny http://www.humanconnectomeproject.org/ http://fcon_1000.projects.nitrc.org/indi/enhanced/ -- Jonathan Smallwood, Reader in Psychology / Cognitive Neuroscience Room C023, Department of Psychology, University of York, England. YO10 4PH. Telephone: 01904 324651

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Updates
by Antony Morland 31 May '17

31 May '17

Hello All, As many of you will already know, our GE scanner is back in action. Thank you for your patience. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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GE update
by Antony Morland 22 May '17

22 May '17

Sorry, All, the GE scanner is still poorly. Progress on its diagnosis is being made, however, and we hope GE will get it fixed tomorrow. Best wishes Tony

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Important: Immediate change to booking slot release
by Mark Hymers 19 May '17

19 May '17

Dear all, As many of you will be aware, for around a decade the YNiC booking system has released slots at midnight each day. How far ahead slots are released depends on the project and the nature of its funding source. We have just made an immediate change to the booking system such that slots will now be released at MIDDAY rather than midnight. This change takes effect immediately. We believe that this change should be reflected in the appearance of the web booking system as well as the internal YNiC booking tools used by staff. If anyone spots any issues with the booking system as a result of this change, please email me directly with details and I will investigate. Many thanks, Mark -- Mark Hymers, Lecturer in Neuroimaging Methods York NeuroImaging Centre and Department of Psychology University of York, UK Please note that my email address is: mark.hymers(a)ynic.york.ac.uk Responses to messages sent to other addresses may be delayed

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GE Update
by Mark Hymers 19 May '17

19 May '17

Hi all, Another update on the GE scanner. Although the GE scanner looks more like an MRI scanner again, it is still not functional. Diagnostic work carried out today means that we believe that the two parts likely to be responsible have been identified. One part arrived at YNiC this evening and the other is due to be delivered first thing on Monday morning. GE Engineers will be on site on Monday to fit the parts and, hopefully, resolve the issue. Scanning on Monday has been cancelled. Another update should be sent around Monday lunchtime. Thanks, Mark -- Mark Hymers, Lecturer in Neuroimaging Methods York NeuroImaging Centre and Department of Psychology University of York, UK Please note that my email address is: mark.hymers(a)ynic.york.ac.uk Responses to messages sent to other addresses may be delayed

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GE Scanner update
by Mark Hymers 18 May '17

18 May '17

Hi all, The attached picture shows the GE scanner just after 5pm. Unsurprisingly, this means that we will not be scanning tomorrow. We are awaiting a part (arriving later this evening) and engineers will be on-site this evening and tomorrow continuing to work on the problem. We are currently discussing the effect that this has had on MSc scanning and will write to students and supervisors once the scanner is available again to let them know what arrangements we are making to make sure we get all of the scanning done. More updates tomorrow. Thanks, Mark -- Mark Hymers, Lecturer in Neuroimaging Methods York NeuroImaging Centre and Department of Psychology University of York, UK Please note that my email address is: mark.hymers(a)ynic.york.ac.uk Responses to messages sent to other addresses may be delayed

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Scanner update
by Antony Morland 17 May '17

17 May '17

Apologies, All, another day, another update. The GE engineers replaced a number of parts today, but have still to fix the problem. They return tomorrow to do more work to remedy our problem. I hope to be able to relay more positive news soon. Best wishes Toby

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GE update
by Antony Morland 16 May '17

16 May '17

Hello All, Sorry, still no good news to report. Tomorrow, GE will attend again to replace parts and see if that resolves the issues we are encountering. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Update
by Antony Morland 16 May '17

16 May '17

Apologies, All, the GE engineer was unable to fully resolve the scanner issues yesterday. GE will be at ynic again today to investigate and hopefully resolve the issue. Updates to follow. Best wishes Tony

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