[Neuroimaging] Query on fmriprep

[Franco Pestilli]

Hi Jiaying.

Have you looked at the web service implementing FMRIPREP on brainlife.io?
https://doi.org/10.25663/brainlife.app.160
https://doi.org/10.25663/brainlife.app.267

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:
https://brainlife.io/docs/ <https://brainlife.io/docs/>
https://brainlife.io/docs/tutorial/fmri-preprocessing-tutorial/ <https://brainlife.io/docs/tutorial/fmri-preprocessing-tutorial/>

I hope this helps.

Best regards,
Franco

Franco Pestilli, PhD
Associate Professor
Psychology <http://psych.indiana.edu/>, Neuroscience <http://www.indiana.edu/~neurosci/> and Cognitive Science <http://www.cogs.indiana.edu/> 
Engineering <https://www.engineering.indiana.edu/people/profile.html?profile_id=528>, Computer Science <https://www.cs.indiana.edu/>, and Optometry <http://optometry.iu.edu/> by courtesy
𝞇 Indiana University <http://www.iub.edu/>
Principal Midwest Big Data Hub <http://midwestbigdatahub.org/>
Microsoft Faculty Fellow <https://www.microsoft.com/en-us/research/blog/microsoft-investigator-fellows-accelerate-scientific-and-teaching-impact-with-azure-cloud-computing/?fbclid=IwAR2adMlfl3uhr8gCdp36ivFqgdD5-9Bwp8imnxredAdQ0O3Ae8JM6ntBgDg> | brainlife.io <http://www.brain-life.org/> 

> On Mar 2, 2020, at 7:17 AM, JIAYING CHEN <missjy at connect.hku.hk> wrote:
> 
> Hi,
> 
> I’m 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.
> 
> Could you please tell me what to do regarding this issue? Your reply will be much appreciated.
> 
> Best regards,
> Jiaying
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