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bids-apps / MRtrix3_connectome

Generate subject connectomes from raw BIDS data & perform inter-subject connection density normalisation, using the MRtrix3 software package.
http://www.mrtrix.org/
Apache License 2.0
49 stars 26 forks source link

Test data - fmap data #6

Closed Lestropie closed 7 years ago

Lestropie commented 8 years ago

Need a test data set that includes reversed phase-encode EPI data for susceptibility distortion correction. From memory I went through the BIDS example data list and didn't find anything. @chrisfilo Are you able to add something, or is there a way for me to upload a couple of data sets?

chrisgorgo commented 8 years ago

The only dataset I could think of is HCP, but we have not converted it to BIDS yet, and we don't have permissions to reshare. It's also too big for an example.

If you have an example and can share it I can put it along the others on Google drive.

Best, Chris

On Sep 5, 2016 6:29 AM, "Robert Smith" notifications@github.com wrote:

Need a test data set that includes reversed phase-encode EPI data for susceptibility distortion correction. From memory I went through the BIDS example data list and didn't find anything. @chrisfilo https://github.com/chrisfilo Are you able to add something, or is there a way for me to upload a couple of data sets?

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/BIDS-Apps/MRtrix3_connectome/issues/6, or mute the thread https://github.com/notifications/unsubscribe-auth/AAOkp3lBktfUDS9ppM_kGyGXCVbaSjx9ks5qnBkdgaJpZM4J1EnG .

Lestropie commented 8 years ago

I'll have to ask the boss about permissions seeing as though the data would be publicly accessible. Hopefully we'll figure something out.

chrisgorgo commented 8 years ago

One subject (you might even considering downsampling) should suffice.

On Sep 5, 2016 7:20 AM, "Robert Smith" notifications@github.com wrote:

I'll have to ask the boss about permissions seeing as though the data would be publicly accessible. Hopefully we'll figure something out.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/BIDS-Apps/MRtrix3_connectome/issues/6#issuecomment-244757822, or mute the thread https://github.com/notifications/unsubscribe-auth/AAOkp-f_lm4Qy0wti2OnBAdEOdCdATsMks5qnCUOgaJpZM4J1EnG .

Lestropie commented 7 years ago

Test data are currently hosted from my own Dropbox. Consists of two subjects (which means that the group-wise step can also be tested), for which pre-processing has already been performed (and the relevant steps of the script are therefore skipped using the -preprocessed option), and the images have then been down-sampled.