MICAPIPE

As described in the official MICAPIPE page:

Micapipe is a processing pipeline providing a robust framework to analyze multimodal MRI data. This pipeline integrates processing streams for T1-weighted, microstructure-sensitive, diffusion-weighted, and resting-state functional imaging to facilitate the development of multiscale models of neural organization. For this purpose, we leverage several specialized software packages to bring BIDS-formatted raw MRI data to fully-processed surface-based feature matrices.

We recommend visiting MICAPIPE if you want more information.

You can now run MICAPIPE in CBRAIN by following the steps:

1. Create a project

2. Upload files

Select your input files

Please note the Pre-Requirement for the input files:

1. Download an open-access dataset

2. Converting to BIDS

3. BIDS format validation

   • Any new dataset has to be BIDS-compliant (see specifications at http://bids-specification.readthedocs.io/), and should be validated with tools provided by BIDS, such as the BIDS-validator available in CBRAIN.

Full information can be found here HERE

Once you have your required input file please select it from the file list:

3. Launch Task

4. Task parameters

Set up the task parameters according to your interest

Please make sure to

5. Output (Derivatives)

All the outputs are BIDS conform and stored under their correspondent directory (e.g. anat, func dwi..).

Explore the tree directory by expanding the folder of your interest where you can find quality control reports and visualize available files without the need to download them by simply clicking on the link.