micapipe from the Multimodal imaging and connectome analysis lab (http://mica-mni.github.io) at the Montreal Neurological Institute. Read The Docs documentation below
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Updated
Apr 16, 2024 - Shell
micapipe from the Multimodal imaging and connectome analysis lab (http://mica-mni.github.io) at the Montreal Neurological Institute. Read The Docs documentation below
Run the recommended preprocessing procedure provided by mrtrix3. The options available mostly reflect the optimal DESIGNER pipeline that was recently proposed. This App runs for >15 on topup if both PA and AP dwi files are provided. It detects bvecs flipping (dwigradcheck) and update the gradient table accordingly.
Scripts for MRI preprocessing
Tract Segmentation from input tractography using ROIs
Brainlife wrapper app for dipy_fit_csa workflows
Brainlife wrapper app for dipy_denoise_lpca workflows.
Peak width of Skeletonized Mean Diffusivity (PSMD)
Brainlife wrapper app for dipy_recobundles workflows.
Brainlife wrapper app for dipy_fit_dki workflows. Fit a Diffusion Kurtosis Imaging model to multishell Diffusion-weighted data
Brainlife App (wrapper) for dMRI based fiber tracking between ROIs using parallel transport tractography
Brainlife wrapper app for dipy_median_otsu workflows.
Brainlife wrapper app for dipy_track_pft workflows.
Brainlife wrapper app for dipy_track workflows.
Brainlife wrapper app for dipy_gibbs_ringing workflows.
Brainlife wrapper app for dipy_reslice workflows.
Brainlife wrapper app for dipy_denoise_mppca workflows.
Brainlife wrapper app for dipy_fit_csd workflows.
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