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</o:shapelayout></xml><![endif]--></head><body lang=EN-GB link=blue vlink=purple style='word-wrap:break-word'><div class=WordSection1><p class=MsoNormal><span style='mso-fareast-language:EN-US'>Hi all,<o:p></o:p></span></p><p class=MsoNormal><span style='mso-fareast-language:EN-US'><o:p> </o:p></span></p><p class=MsoNormal><span style='mso-fareast-language:EN-US'>In our recent paper (<a href="https://urldefense.com/v3/__https://www.biorxiv.org/content/10.1101/2023.08.26.554888v2__;!!HJOPV4FYYWzcc1jazlU!94pz4Qiijp2VeSRYpmOrauMINch96GBkT2eYdC33QTyudtuTj54NOwu8XGJgqGYHBuz0TDbkzaBNfbW-BipRmwIU$">https://www.biorxiv.org/content/10.1101/2023.08.26.554888v2</a>), we used a graph-based approach to define neighbourhood for connectivity. The code is implemented in Automatic Analysis (<a href="https://urldefense.com/v3/__https://automaticanalysis.github.io__;!!HJOPV4FYYWzcc1jazlU!94pz4Qiijp2VeSRYpmOrauMINch96GBkT2eYdC33QTyudtuTj54NOwu8XGJgqGYHBuz0TDbkzaBNfbW-BjD6JY4c$">https://automaticanalysis.github.io</a>).<o:p></o:p></span></p><p class=MsoNormal><span style='mso-fareast-language:EN-US'><o:p> </o:p></span></p><div><p class=MsoNormal><span style='mso-ligatures:standardcontextual;mso-fareast-language:EN-US'>Kind regards,</span><span style='mso-fareast-language:EN-US'><o:p></o:p></span></p><p class=MsoNormal>Tibor <span lang=HU><o:p></o:p></span></p><p class=MsoNormal> <span lang=HU><o:p></o:p></span></p><p class=MsoNormal><b><span style='color:#222A35'>Dr Tibor Auer, MD, PhD, FHEA</span></b><span lang=HU><o:p></o:p></span></p><p class=MsoNormal><a href="mailto:tibor.auer@gmail.com"><span lang=DE style='color:#0563C1'>tibor.auer@gmail.com</span></a><span lang=DE><o:p></o:p></span></p><p class=MsoNormal><span lang=DE>+44-7906-863837</span><span lang=HU><o:p></o:p></span></p><p class=MsoNormal><a href="https://urldefense.com/v3/__http://www.linkedin.com/in/tibor-auer__;!!HJOPV4FYYWzcc1jazlU!94pz4Qiijp2VeSRYpmOrauMINch96GBkT2eYdC33QTyudtuTj54NOwu8XGJgqGYHBuz0TDbkzaBNfbW-BrrYl017$"><span lang=DE style='color:#0563C1'>LinkedIn: tibor-auer</span></a><span lang=HU><o:p></o:p></span></p></div><p class=MsoNormal><span lang=DE style='mso-fareast-language:EN-US'><o:p> </o:p></span></p><div><div style='border:none;border-top:solid #E1E1E1 1.0pt;padding:3.0pt 0cm 0cm 0cm'><p class=MsoNormal><b><span lang=HU>From:</span></b><span lang=HU> fieldtrip <fieldtrip-bounces@science.ru.nl> <b>On Behalf Of </b>Michael Glassen via fieldtrip<br><b>Sent:</b> Thursday, August 31, 2023 10:11 PM<br><b>To:</b> FieldTrip discussion list <fieldtrip@science.ru.nl><br><b>Cc:</b> Michael Glassen <mglassen@shp.rutgers.edu><br><b>Subject:</b> Re: [FieldTrip] Cluster based statistics on channel-channel-freq connectivity<o:p></o:p></span></p></div></div><p class=MsoNormal><o:p> </o:p></p><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>Just wanted to add some further information, I ran cluster statistics on my connectivity data(32 subjects, 2 timepoints each, conn matrices were 246Channel_246Channel_4Freq(alphaband)). I ran this without a neighbors file, and got 3 clusters with p<.05, with num randomization at 100 for exploratory purposes. These clusters were all similar in that the first channel dimension was the same across the cluster, the second channel dimension were different channels but sequential, and the frequencys were variable. I pasted the results below:<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>stat.posclusters(1) <o:p></o:p></span></p><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>ans = <o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> struct with fields:<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> prob: 0.0099<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> clusterstat: 136.6784<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> stddev: 0.0099<o:p></o:p></span></p></div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> cirange: 0.0194<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>[x y z] = findND(stat.posclusterslabelmat == 1); %findND works the same as matlab builtin find, but works on matrices and returns the indices for each dimension<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>x = <o:p></o:p></span></p><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 129<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>y <o:p></o:p></span></p><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>y =<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 26<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 27<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 28<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 29<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 30<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 31<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 32<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 33<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 34<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 35<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 36<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 37<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 38<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 39<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 40<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 41<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 42<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 43<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 44<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 45<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 46<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 47<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 48<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 49<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 50<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 51<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 52<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 53<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 54<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 28<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 42<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 44<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 46<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 50<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 53<o:p></o:p></span></p></div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'> 54<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>z <o:p></o:p></span></p><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'><o:p> </o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>z =<o:p></o:p></span></p></div><div><p 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class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>Best,<o:p></o:p></span></p></div><div><p class=MsoNormal><span style='font-size:12.0pt;font-family:"Aptos",sans-serif;color:black'>Michael Glassen<o:p></o:p></span></p></div><div class=MsoNormal align=center style='text-align:center'><hr size=2 width="98%" align=center></div><div id=divRplyFwdMsg><p class=MsoNormal><b><span style='color:black'>From:</span></b><span style='color:black'> fieldtrip <<a href="mailto:fieldtrip-bounces@science.ru.nl">fieldtrip-bounces@science.ru.nl</a>> on behalf of Michael Glassen via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a>><br><b>Sent:</b> Thursday, August 31, 2023 3:16 PM<br><b>To:</b> <a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a> <<a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a>><br><b>Cc:</b> Michael Glassen <<a href="mailto:mglassen@shp.rutgers.edu">mglassen@shp.rutgers.edu</a>><br><b>Subject:</b> [FieldTrip] Cluster based statistics on channel-channel-freq connectivity</span> <o:p></o:p></p><div><p class=MsoNormal> <o:p></o:p></p></div></div><div><div><p class=MsoNormal>Hi all,<br><br>I wanted to know if it was valid to run cluster based statistics on connectomes created using ft_connectivity analysis on source data generated from ft_virtualchannel. This gives me a connectome with channel_channel_frequency dimensions. If this is valid, I was wondering how neighbors would work. I created a neighbor file for the atlas I’m using that works on power cluster statistics, but I’m unsure how this translates to connectome now that there are channel pairs. I was thinking of editing the connectome to be channelpair_frequency, and creating a neighbor file at the channel pair level. If neither of these neighbor approaches work, would it be valid to run stats without a neighbor file(clustering only based on frequency)? Any input would be appreciated!<br><br>Best,<br>Michael Glassen<br><br><br><br>_______________________________________________<br>fieldtrip mailing list<br><a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip">https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmailman.science.ru.nl%2Fmailman%2Flistinfo%2Ffieldtrip&data=05%7C01%7Cmglassen%40shp.rutgers.edu%7C5120f8c20a0a425ebb0a08dbaa577929%7Cb92d2b234d35447093ff69aca6632ffe%7C1%7C0%7C638291064905181750%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=kmbz8lAdJ4cZm9Y4UmQXrKd0NJxq5WQuyYGW8kwQB6E%3D&reserved=0</a><br><a href="https://urldefense.com/v3/__https:/doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!6c-ZpPvSngTWcUW_Z6-rR3wWK2OkZyaGyYCRdLdTRRyXQWbSI4KGIxreEpJj1OMopQppSmdFkAgraj9NesXMJDw3BEY8$">https://nam02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.1371%2Fjournal.pcbi.1002202&data=05%7C01%7Cmglassen%40shp.rutgers.edu%7C5120f8c20a0a425ebb0a08dbaa577929%7Cb92d2b234d35447093ff69aca6632ffe%7C1%7C0%7C638291064905181750%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=3CsdFzkrs%2BMybh9CXtQJQi0FauWdPlYMWreWb3%2BIn3w%3D&reserved=0</a><o:p></o:p></p></div></div></div></body></html>