micapipe
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MICA-MNI
micapipe from the Multimodal imaging and connectome analysis lab (http://mica-mni.github.io) at the Montreal Neurological Institute. Read The Docs documentation below
When running the micapipe container with the MPC module it appears that for some subjects and sessions my surface are not ordered correctly resulting in wrong lateralised correlation matrices, see...
* **What is the current behavior?** * Run `-proc_dwi` without `-autotract` and without `-keep_tck`. (Exit successfully) * Rerun `-proc_dwi` with `-autotract`. * AutoTract exits due to lack of `tck` tractogram...
* **What is the current behavior?** I have generated FC matrices with micapipe (singularity). Some of them contain 450 rows (which is the correct number for Schaefer-400), yet some of...
Hi, I'm using auto_tract standalone pipeline to do bundle segmentation with whole-brain tractogram we estimated before. Tractograms were estimated with matrix3 iFOD2. When I run auto_tract pipeline, however, there were...
* **What is the current behaviour?** * Freesurfer is slow and fix_topology is a problem. * * **What is the motivation / use case for changing the behaviour?** * *...
* **What are you trying to do?** * **If you've tried running this with BrainSpace code already, how did you do so and what went wrong?** * **Please tell us...
* **What is the current behavior?** * fschfiletype program from fsl v6.0.0 (default in micapipe docker image) destroys T1w data when working with uint16 or float32 T1-weighted images. * **Please...
We have two runs of rsfmri in a single session: ``` tree inputs/sub-219/ses-itbs/func inputs/sub-219/ses-itbs/func ├── sub-219_ses-itbs_task-rest_run-01_bold.json ├── sub-219_ses-itbs_task-rest_run-01_bold.nii.gz ├── sub-219_ses-itbs_task-rest_run-01_events.tsv ├── sub-219_ses-itbs_task-rest_run-02_bold.json ├── sub-219_ses-itbs_task-rest_run-02_bold.nii.gz └── sub-219_ses-itbs_task-rest_run-02_events.tsv ``` I'd like to...
fmriprep uses fieldmaps (magnitude and phasediff) to correct distortion in bold images. It also allows a simple RPE image of the main bold data. Could you implement some of these...
Hello everyone, I am trying to run micapipe_cleanup using a linux machine with docker. However I keep getting the error that the repository does not exist. I have been using...
