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Hi Conny,
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<div class="">Again, could you please spill more details?</div>
<div class="">-what is the connectivity metric you want to compute?</div>
<div class="">-what do you mean with ‘cfg.refindx seems not to do anything’?</div>
<div class="">-what have you done in terms of diagnostics yourself? have you looked into the code with breakpoints etc.?</div>
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<div class="">Jan-Mathijs</div>
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<div class="">On 24 Oct 2018, at 23:42, Conny Quaedflieg <<a href="mailto:cornelia.quaedflieg@uni-hamburg.de" class="">cornelia.quaedflieg@uni-hamburg.de</a>> wrote:</div>
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<span lang="EN-GB" class="">Dear Jan-Mathijs,<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class="">Thank you for your quick reply.<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class=""><o:p class=""> </o:p></span></div>
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<span lang="EN-GB" class="">@1R Indeed<span class="Apple-converted-space"> </span></span><span lang="EN-GB" class="">ft_connectivityanalysis on individual dipole positions (PCC). Cfg.refindx’ seems not to do anything, are there other options to run a seed-based
connectivity analysis?<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class="">@R2 We indeed performed<span class="Apple-converted-space"> </span></span><span lang="EN-GB" class="">source-reconstruction for each subject on a subject-specific grid, that maps onto a template grid in spatially normalized space.<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class=""> I constructed a GA of the individual data and would like to plot these on a standard cortical sheet / brain surface.<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class="">Best<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<span lang="EN-GB" class="">Conny<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div>
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<o:p class=""> </o:p></div>
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<b class="">Van:<span class="Apple-converted-space"> </span></b><a href="mailto:jan.schoffelen@donders.ru.nl" style="color: rgb(149, 79, 114); text-decoration: underline;" class="">Schoffelen, J.M. (Jan Mathijs)</a><br class="">
<b class="">Verzonden:<span class="Apple-converted-space"> </span></b>woensdag 24 oktober 2018 10:16<br class="">
<b class="">Aan:<span class="Apple-converted-space"> </span></b><a href="mailto:fieldtrip@science.ru.nl" style="color: rgb(149, 79, 114); text-decoration: underline;" class="">FieldTrip discussion list</a><br class="">
<b class="">Onderwerp:<span class="Apple-converted-space"> </span></b>Re: [FieldTrip] seed based SOURCE connectivity analysis betweenGroups - GA, plotting and statistics</div>
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Hi Conny,<o:p class=""></o:p></div>
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You are a bit short on the details, so it is hard to give to-the-point feedback.<o:p class=""></o:p></div>
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@1 this depends on the type of connectivity metric you have in mind. You mention the ‘cfg.refindx’ so I assume that you want to use ft_connectivityanalysis. Also, do you use ‘parcellated’ source data, or is the data defined on individual dipole positions?<o:p class=""></o:p></div>
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@2 this works best if your individual subject source models can be easily compared, e.g. according to <o:p class=""></o:p></div>
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<a href="http://www.fieldtriptoolbox.org/tutorial/sourcemodel#performing_group_analysis_on_3-dimensional_source-reconstructed_data" style="color: rgb(149, 79, 114); text-decoration: underline;" class="">http://www.fieldtriptoolbox.org/tutorial/sourcemodel#performing_group_analysis_on_3-dimensional_source-reconstructed_data</a><o:p class=""></o:p></div>
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This allows for averaging/statistics at the low-number-of-sources (before interpolation) and saves a lot of memory.<o:p class=""></o:p></div>
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Best wishes,<o:p class=""></o:p></div>
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Jan-Mathijs<o:p class=""></o:p></div>
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On 23 Oct 2018, at 00:18, Quaedflieg, Conny (PSYCHOLOGY) <<a href="mailto:conny.quaedflieg@maastrichtuniversity.nl" style="color: rgb(149, 79, 114); text-decoration: underline;" class="">conny.quaedflieg@maastrichtuniversity.nl</a>> wrote:<o:p class=""></o:p></div>
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<a name="OLE_LINK1" class=""><span style="font-family: Tahoma, sans-serif;" class="">Dear Fieldtripers,</span></a><span class=""></span><o:p class=""></o:p></div>
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<span style="font-family: Tahoma, sans-serif;" class=""> </span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">I’m trying to compare 2 groups (n=40 per group) on SOURCE connectivity data using a seed (based on an atlas).</span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">Based on the help function this should be possible using<span class="apple-converted-space"> </span>cfg.refindx.<span class="apple-converted-space"> </span></span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">Though, the analysis looks exactly the same with and without the refindx specified.</span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">I would be really grateful with help on the following</span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">Ideas how to run a seed based source analysis</span><o:p class=""></o:p></li><li class="MsoListParagraph" style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;">
<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">How can I combine source data of several pp’s and plot the grand averages and run statistics over it?</span><o:p class=""></o:p></li></ol>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">I tried this with ft_sourcegandaverage though when interpolating the data to the MRI I get error messages that the data is too large and that it wil take too long.</span><o:p class=""></o:p></div>
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<span lang="EN-GB" style="font-family: Tahoma, sans-serif;" class="">Best</span><o:p class=""></o:p></div>
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<span lang="EN-GB" class="">Conny Quaedflieg, PhD</span></p>
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<span lang="EN-GB" style="color: rgb(127, 127, 127);" class="">Assistant Professor<br class="">
Department of Clinical Psychological Science<br class="">
Faculty of Psychology and Neuroscience<br class="">
UNS 40, Room A3731a</span><o:p class=""></o:p></div>
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<span style="color: rgb(127, 127, 127);" class="">043-883164</span><o:p class=""></o:p></div>
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