<div dir="ltr"><span style="font-family:arial,sans-serif;font-size:13px">Dear Sara</span><div style="font-family:arial,sans-serif;font-size:13px"><br></div><div style="font-family:arial,sans-serif;font-size:13px">AMRI also have a toolbox that uses ICA and mutual information to detect and remove artifactual components. The r peak detection is based on the fmrib toolbox code and uses the TEO. </div>
<div style="font-family:arial,sans-serif;font-size:13px"><br></div><div style="font-family:arial,sans-serif;font-size:13px"><a href="http://amri.ninds.nih.gov/cgi-bin/software" target="_blank">http://amri.ninds.nih.gov/cgi-bin/software</a><br>
</div><div style="font-family:arial,sans-serif;font-size:13px"><a href="http://www.ncbi.nlm.nih.gov/pubmed/22036675?dopt=Abstract" target="_blank">http://www.ncbi.nlm.nih.gov/pubmed/22036675?dopt=Abstract</a> </div><div style="font-family:arial,sans-serif;font-size:13px">
<br></div><div style="font-family:arial,sans-serif;font-size:13px">Best</div><div style="font-family:arial,sans-serif;font-size:13px">Josh</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On 15 November 2013 02:14, Arnaud Delorme <span dir="ltr"><<a href="mailto:arno@ucsd.edu" target="_blank">arno@ucsd.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div style="word-wrap:break-word">Dear Sara,<div><br></div><div>yes, I think the Bergen plugin is the one I was thinking about.</div>
<div>Not being expert in the field, I do not know the other plugins. Maybe these are the only two.</div><div>Best,</div><div><br></div><div>Arno</div><div><div class="h5"><div><br><div><div>On Nov 14, 2013, at 2:45 AM, Sara Assecondi <<a href="mailto:s.assecondi@bham.ac.uk" target="_blank">s.assecondi@bham.ac.uk</a>> wrote:</div>
<br><blockquote type="cite"><div lang="EN-GB" link="blue" vlink="purple" style="font-family:Helvetica;font-size:medium;font-style:normal;font-variant:normal;font-weight:normal;letter-spacing:normal;line-height:normal;text-align:-webkit-auto;text-indent:0px;text-transform:none;white-space:normal;word-spacing:0px">
<div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Dear Arno,<u></u><u></u></span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)"> </span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Thank you for your reply.<u></u><u></u></span></div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">I’ll try to fix the code and possibly send it to you, in case someone else is interested, obviously if this is fine with the plugin’s author.<u></u><u></u></span></div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)"> </span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">I was wondering if you could also point me to other plugins for MR-related artifact removal: I am aware of the Bergen plugin, but as far as I understand it does not deal with the ballistocardiographic artifact, which is the artifact I need to remove. I do have some home-made code implementing Allen’s Average Artifact Subtraction, but I am interested in comparing it to other approaches.<u></u><u></u></span></div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)"> </span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Any input on this would be very much appreciated.<u></u><u></u></span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)"> </span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Thanks<u></u><u></u></span></div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Best regards<u></u><u></u></span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)">Sara<u></u><u></u></span></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><a name="1425a9afb0966661__MailEndCompose"><span style="font-size:11pt;font-family:Calibri,sans-serif;color:rgb(31,73,125)"> </span></a></div>
<div style="border-style:none none none solid;border-left-width:1.5pt;border-left-color:blue;padding:0cm 0cm 0cm 4pt"><div><div style="border-style:solid none none;border-top-width:1pt;border-top-color:rgb(181,196,223);padding:3pt 0cm 0cm">
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><b><span lang="EN-US" style="font-size:10pt;font-family:Tahoma,sans-serif">From:</span></b><span lang="EN-US" style="font-size:10pt;font-family:Tahoma,sans-serif"><span> </span>Arnaud Delorme [mailto:<a href="mailto:arno@" target="_blank">arno@</a><a href="http://ucsd.edu" style="color:purple;text-decoration:underline" target="_blank">ucsd.edu</a>]<span> </span><br>
<b>Sent:</b><span> </span>13 November 2013 21:55<br><b>To:</b><span> </span>Sara Assecondi<br><b>Cc:</b><span> </span><a href="mailto:eeglablist@sccn.ucsd.edu" style="color:purple;text-decoration:underline" target="_blank">eeglablist@sccn.ucsd.edu</a><br>
<b>Subject:</b><span> </span>Re: [Eeglablist] fmrib plugin for EEG-fMRI datasets<u></u><u></u></span></div></div></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><u></u> <u></u></div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">Dear Sarah,<u></u><u></u></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<u></u> <u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">where did you get the plugin from. If it is the one included in EEGLAB, it is the latest version. However, this plugin is not supported any more. Are you familiar with Github or Google code? Maybe you could put there and you could fix whatever you think needs to be fixed. Otherwise, you could send us your changes and we will replace the files.<u></u><u></u></div>
</div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><u></u> <u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
Note that there are now other plugins to remove fMRI artifacts.<u></u><u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><u></u> <u></u></div></div><div>
<div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">Thanks,<u></u><u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<u></u> <u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">Arno<u></u><u></u></div></div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<u></u> <u></u></div><div><div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">On Nov 12, 2013, at 7:30 AM, Sara Assecondi <<a href="mailto:s.assecondi@bham.ac.uk" style="color:purple;text-decoration:underline" target="_blank">s.assecondi@bham.ac.uk</a>> wrote:<u></u><u></u></div>
</div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><br><br><u></u><u></u></div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif">
<span style="font-size:13.5pt;font-family:Helvetica,sans-serif">I edited the function fmrib_qrsdetect() and I found problems in the way the variables are addressed (more specifically wrong names of the fields of the EEG structure). These issues are easy to fix, but before starting to modify the code I was wondering if the version of the plugin I am using might not be up to date.</span><u></u><u></u></div>
</div><div style="margin:0cm 0cm 0.0001pt;font-size:12pt;font-family:'Times New Roman',serif"><u></u> <u></u></div></div></div></div></div></blockquote></div><br></div></div></div></div><br>_______________________________________________<br>
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-- <br>
Joshua Henk Balsters<br>Postdoctoral Fellow<br><br>Neural Control of Movement Lab<br>Department of Health Sciences and Technology<br>ETH Zurich, Switzerland<br><br>Y36 M 12<br>Winterthurerstrasse 190<br>8057 Zuerich<br><br>
Tel: +41 44 63 56101<br>email: <a href="mailto:joshua.balsters@hest.ethz.ch" target="_blank">joshua.balsters@hest.ethz.ch</a><br><a href="http://angelaschoellig.academia.edu/JoshuaBalsters" target="_blank">http://angelaschoellig.academia.edu/JoshuaBalsters</a>
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