<div dir="ltr">Hi Fan.<div><br>To add up to JM's words, there<span class="gmail_default" style="font-size:large"> </span>is <span class="gmail_default" style=""><font size="4"></font>an<font size="4"> </font></span>online freesurfer standard surface of the Conte69, as well. By small modifications of the  ft_postfreesurferscript.sh script, you can obtain that one<span class="gmail_default" style="font-size:large"> </span>for the decimated surface, as well. I didn't perform the sub-parcellation scheme but I guess you can intervene there by acting on the labels for your own purposes.<br><br><div>Best,<br><br>Paolo<div><br></div></div></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Wed, May 10, 2023 at 9:43 AM Schoffelen, J.M. (Jan Mathijs) via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl">fieldtrip@science.ru.nl</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">



<div style="overflow-wrap: break-word;">
Hi Fan,
<div><br>
</div>
<div>
<div>If it is your intention to do a cortical surface based source reconstruction, where you have managed to create the individual surface aligned cortical sheets, it suggests that you have managed to successfully run the ft_postfreesurferscript.sh. If memory
 serves me well, the output to this script will also contain the topologically equivalent low-resolution versions of the freesurfer generated automatic parcellations (look for files with ‘aparc’ in the name). These can be read in with ft_read_atlas. If this
 eventually works for you, but does not give the desired results that allow you to answer your scientific question, then one could consider another parcellation.</div>
<div><br>
</div>
<div>Good luck,</div>
<div>Jan-Mathijs</div>
<div> </div>
<div><br>
</div>
<div><br>
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<div><br>
<blockquote type="cite">
<div>On 8 May 2023, at 16:25, Puluto Go via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl" target="_blank">fieldtrip@science.ru.nl</a>> wrote:</div>
<br>
<div>
<div dir="ltr" style="font-family:Helvetica;font-size:14px;font-style:normal;font-variant-caps:normal;font-weight:normal;letter-spacing:normal;text-align:start;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px;text-decoration:none">
Hi Paolo and other experts,
<div><br>
</div>
<div>If it is convenient, could you please give a sample script or a bit of detailed instruction on the procedure below, </div>
<div><span style="white-space:pre-wrap">2) you generate a low-resolution version of the Conte69 atlas using HCP-workbench, using the same spherical template meshes (mapping the 164k per hemisphere to the 8k per hemisphere meshes), and apply
 a ’subparcellation’ scheme to chop up the large Brodmann areas in smaller chunks, which was specified here,
</span><a href="https://mailman.science.ru.nl/pipermail/fieldtrip/2021-March/040784.html" target="_blank">https://mailman.science.ru.nl/pipermail/fieldtrip/2021-March/040784.html</a>. </div>
<div><br>
</div>
<div>I appreciate it a lot in advance.</div>
<div><br>
</div>
<div>best,</div>
<div>Fan</div>
<div>
<div><br>
</div>
<div><br>
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<div dir="ltr" class="gmail_attr">On Mon, 8 May 2023 at 14:50, Puluto Go <<a href="mailto:gopuluto@gmail.com" target="_blank">gopuluto@gmail.com</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Hi Paolo,
<div><br>
</div>
<div>Thanks a lot for your quick reply. Could you please send me the link to download the Glasser Atlas? </div>
<div><br>
</div>
<div>best,</div>
<div>Fan</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Mon, 8 May 2023 at 14:25, Paolo Belardinelli <<a href="mailto:paolo.belardinelli@gmail.com" target="_blank">paolo.belardinelli@gmail.com</a>> wrote:<br>
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<div dir="ltr">
<div class="gmail_default" style="font-size:large">Hi Fan.</div>
<div class="gmail_default" style="font-size:large"><br>
</div>
<div class="gmail_default" style="font-size:large">You can get the freesurfer generated mesh of the Glasser Atlas from the webpage of the van Essen et al. paper and decimate that consistently with the sourcemodel through the ft_postfreesurferscript.</div>
<div class="gmail_default" style="font-size:large"><br>
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<div class="gmail_default" style="font-size:large">Best,</div>
<div class="gmail_default" style="font-size:large"><br>
</div>
<div class="gmail_default" style="font-size:large">Paolo</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Mon, May 8, 2023 at 2:04 PM Puluto Go via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl" target="_blank">fieldtrip@science.ru.nl</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Dear FT experts,
<div><br>
</div>
<div>Hope you all are doing well. I used the standard pipeline,<span> </span><a href="https://urldefense.com/v3/__https://www.fieldtriptoolbox.org/tutorial/sourcemodel/__;!!HJOPV4FYYWzcc1jazlU!_hjVO1VbUWG0broPdCxr7Xqn2ppQIvubNCHuUYo04PEDDWmABEcO5XV2tM_Gl1QGRDW3hBeXdouBSg2J8PsX0A$" target="_blank">https://www.fieldtriptoolbox.org/tutorial/sourcemodel/</a>,
 to generate a source mesh for each of my participants. The procedure resulted in a 15684 vertices mesh for each participant. My questions are as follows.</div>
<div><br>
</div>
<div>1), If there is an atlas corresponding to the 15684 vertices mesh in the workbench output. If so, could you please tell me how it is named?  May I use ft_read_atlas to read it? </div>
<div><br>
</div>
<div>2), the second one relates to the thread here, <a href="https://mailman.science.ru.nl/pipermail/fieldtrip/2021-March/040784.html" target="_blank">https://mailman.science.ru.nl/pipermail/fieldtrip/2021-March/040784.html</a>, in which (the
 second solution) you specified the procedure to extract an atlas for source mesh with 15684 vertices, could you please elaborate it a little bit on how to do this? or are there template scripts in FT toolbox to do this? </div>
<div><br>
</div>
<div>Thanks a lot for your help in advance. </div>
<div><br>
</div>
<div>best,</div>
<div>Fan</div>
</div>
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<div dir="ltr" style="color:rgb(80,0,80)"><a href="https://urldefense.com/v3/__http://www.unitn.it/__;!!HJOPV4FYYWzcc1jazlU!8o5bWSs-Q5oCITgwuFIpGSP8tWlUR1vk7HgiKeSqfVBVlF1lk0M5pc6CxgULPuM1rUEd4DR_CDn-bxsBS_3q0A$" style="font-family:inherit;font-size:inherit;font-style:inherit;font-variant-caps:inherit;font-weight:inherit;font-stretch:inherit;line-height:inherit;margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline" target="_blank"><img alt="Università di Trento" src="https://static-cdn.unitn.it/fileswww/webteam/ico_mail/logo_unitrento_firma.png?test=6666" title="Università di Trento" width="200" height="74" style="border: 0px none; margin: 0px; padding: 0px; outline: currentcolor none 0px; vertical-align: bottom; font-family: inherit; font-size: inherit; font-style: inherit; font-variant-caps: inherit; font-weight: inherit; font-stretch: inherit; line-height: inherit;"></a><br>
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<a href="https://urldefense.com/v3/__https://doi.org/10.1371/journal.pcbi.1002202__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86J5uFINM$" rel="noreferrer" target="_blank">https://doi.org/10.1371/journal.pcbi.1002202</a><br>
</blockquote></div><br clear="all"><div><br></div><span class="gmail_signature_prefix">-- </span><br><div dir="ltr" class="gmail_signature"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div style="color:rgb(34,34,34)"><span style="color:rgb(80,0,80)">--</span><br></div><div><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr" style="color:rgb(80,0,80)"><a href="https://urldefense.com/v3/__http://www.unitn.it/__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86g_fJF2o$" style="color:rgb(0,0,0);font:inherit;margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline" target="_blank"><img alt="Università di Trento" src="https://static-cdn.unitn.it/fileswww/webteam/ico_mail/logo_unitrento_firma.png?test=6666" title="Università di Trento" width="200" height="74" style="border: 0px none; margin: 0px; padding: 0px; outline: currentcolor none 0px; vertical-align: bottom; font: inherit;"></a><br></div><div dir="ltr"><p style="color:rgb(0,0,0);margin:1em 0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-stretch:inherit;font-size:12px;line-height:inherit"><font color="#000000" style="margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-style:inherit;font-variant:inherit;font-stretch:inherit;font-size:inherit;line-height:inherit;font-family:inherit"><span style="color:rgb(32,33,36);font-size:small">Paolo Belardinelli, PhD</span></font></p><p style="color:rgb(0,0,0);margin:1em 0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-stretch:inherit;font-size:12px;line-height:inherit"><a href="https://urldefense.com/v3/__https://www.cimec.unitn.it/en__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86j1J3ev4$" style="font-family:inherit;font-style:inherit;font-size:inherit;color:rgb(17,85,204)" target="_blank">Center for Mind/Brain Sciences - CIMeC</a></p><p style="margin:1em 0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-stretch:inherit;line-height:inherit"><font style="margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-style:inherit;font-variant:inherit;font-stretch:inherit;line-height:inherit;font-family:inherit"><font color="#000000">University of Trento</font><br><font color="#000000">Via delle Regole, 101, 38123 Mattarello-Trento (TN), Italy</font><br><font color="#000000">Phone: (+39)0461-283097</font></font></p><div style="color:rgb(51,51,51);margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font-stretch:inherit;font-size:16px;line-height:inherit"><a href="https://urldefense.com/v3/__https://www.facebook.com/cimec.unitrento/__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86mCBe5Jc$" style="color:rgb(0,0,0);margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font:inherit" target="_blank"><img alt="facebook" src="https://static-cdn.unitn.it/fileswww/webteam/ico_mail/ico_fb_32x32.png" style="border: 0px none; margin: 0px 9px 0px 0px; padding: 0px; outline: currentcolor none 0px; vertical-align: bottom; font: inherit;"></a><a href="https://urldefense.com/v3/__https://twitter.com/cimec_unitrento__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86w4m4LdY$" style="color:rgb(0,0,0);margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font:inherit" target="_blank"><img alt="twitter" src="https://static-cdn.unitn.it/fileswww/webteam/ico_mail/ico_twitter_32x32.png" style="border: 0px none; margin: 0px 9px; padding: 0px; outline: currentcolor none 0px; vertical-align: bottom; font: inherit;"></a><a href="https://urldefense.com/v3/__https://www.instagram.com/cimec_unitrento/__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86jqFhqsk$" style="color:rgb(0,0,0);margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:baseline;font:inherit" target="_blank"><img alt="instagram" src="https://static-cdn.unitn.it/fileswww/webteam/ico_mail/ico_insta_32x32.png" style="border: 0px none; margin: 0px 9px; padding: 0px; outline: currentcolor none 0px; vertical-align: bottom; font: inherit;"></a><a href="https://urldefense.com/v3/__https://www.linkedin.com/company/cimecunitrento/about/__;!!HJOPV4FYYWzcc1jazlU!7JPfV5YS8yWhKaczyXXZb_ai3S7ZtDenQhwSrxewL7nWoDooQUb08hR5Bff04WPX1pIULtDOX2rCsIswHLFL6p86WgPUe-Y$" style="color:rgb(0,0,0);margin:0px;padding:0px;border:0px none;outline:currentcolor none 0px;vertical-align:b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