<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi Jiaying.<div class=""><br class=""></div><div class="">Have you looked at the web service implementing FMRIPREP on <a href="http://brainlife.io" class="">brainlife.io</a>?</div><div class=""><a href="https://doi.org/10.25663/brainlife.app.160" class="">https://doi.org/10.25663/brainlife.app.160</a></div><div class=""><a href="https://doi.org/10.25663/brainlife.app.267" class="">https://doi.org/10.25663/brainlife.app.267</a></div><div class=""><br class=""></div><div class="">The platform is free to use and would allow uploading nifty files and process them with FMRIPREP. After data processing, you could download the results in BIDS format. Here is some information to get your started:</div><div class=""><a href="https://brainlife.io/docs/" class="">https://brainlife.io/docs/</a></div><div class=""><a href="https://brainlife.io/docs/tutorial/fmri-preprocessing-tutorial/" class="">https://brainlife.io/docs/tutorial/fmri-preprocessing-tutorial/</a></div><div class=""><br class=""></div><div class="">I hope this helps.</div><div class=""><br class=""></div><div class="">Best regards,</div><div class="">Franco</div><div class=""><br class=""></div><div class=""><div class="">
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letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div style="orphans: 2; widows: 2;" class=""><div class="">Franco Pestilli, PhD</div><div class="">Associate Professor</div><div class=""><a href="http://psych.indiana.edu/" class="">Psychology</a>, <a href="http://www.indiana.edu/~neurosci/" class="">Neuroscience</a> and <a href="http://www.cogs.indiana.edu/" class="">Cognitive Science</a> </div><div class=""><a href="https://www.engineering.indiana.edu/people/profile.html?profile_id=528" class="">Engineering</a>, <a href="https://www.cs.indiana.edu/" class="">Computer Science</a>, and <a href="http://optometry.iu.edu/" class="">Optometry</a> by courtesy</div><div class=""><font class="" color="#a10025" style="font-family: Courier;">š</font><span style="font-family: Courier;" class=""> </span><a href="http://www.iub.edu/" class="">Indiana University</a></div><div class=""><div class="">Principal <a href="http://midwestbigdatahub.org/" class="">Midwest Big Data Hub</a></div><div class=""><a href="https://www.microsoft.com/en-us/research/blog/microsoft-investigator-fellows-accelerate-scientific-and-teaching-impact-with-azure-cloud-computing/?fbclid=IwAR2adMlfl3uhr8gCdp36ivFqgdD5-9Bwp8imnxredAdQ0O3Ae8JM6ntBgDg" class="">Microsoft Faculty Fellow</a> | <a href="http://www.brain-life.org/" class="">brainlife.io</a> </div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div>
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<div><br class=""><blockquote type="cite" class=""><div class="">On Mar 2, 2020, at 7:17 AM, JIAYING CHEN <<a href="mailto:missjy@connect.hku.hk" class="">missjy@connect.hku.hk</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Hi,<br class=""><br class="">Iām dealing with frmiprep these days, and I met a problem not knowing how to deal with it. I followed the tutorials online to run fmriprep, but it seemed that it can only deal with files in BIDS format. In order to transform the files into BIDS format, I need to use .dcm files. However, I only have .nii files at hand, which seems like a half-processed one.<br class=""><br class="">Could you please tell me what to do regarding this issue? Your reply will be much appreciated.<br class=""><br class="">Best regards,<br class="">Jiaying<br class="">_______________________________________________<br class="">Neuroimaging mailing list<br class=""><a href="mailto:Neuroimaging@python.org" class="">Neuroimaging@python.org</a><br class="">https://mail.python.org/mailman/listinfo/neuroimaging<br class=""></div></div></blockquote></div><br class=""></div></body></html>