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fMRIPrep: A Robust Preprocessing Pipeline for fMRI Data — fmriprep version documentation

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  • [H1] fMRIPrep: A Robust Preprocessing Pipeline for fMRI Data
  • [H2] About
  • [H2] Principles
  • [H2] Citation
  • [H2] License information
  • [H2] Acknowledgements
  • [H2] Contents
  • [H3] License

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fmriprep Interne Passing Juice
Installation Interne Passing Juice
Usage Notes Interne Passing Juice
Processing pipeline details Interne Passing Juice
Defining standard and nonstandard spaces where data will be resampled Interne Passing Juice
FAQ - Frequently Asked Questions Interne Passing Juice
Developers - API Interne Passing Juice
What’s new Interne Passing Juice
Edit on GitHub Externe Passing Juice
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www.nipreps.org Externe Passing Juice
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workflows section of our documentation Externe Passing Juice
FSL Externe Passing Juice
ANTs Externe Passing Juice
FreeSurfer Externe Passing Juice
AFNI Externe Passing Juice
https://fmriprep.readthedocs.io/ Externe Passing Juice
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NiPreps documentation Externe Passing Juice
CC0 license Externe Passing Juice
Esteban et al. (2019) Externe Passing Juice
preprint Externe Passing Juice
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preprint Externe Passing Juice
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Containerized execution (Docker and Singularity) Interne Passing Juice
Manually Prepared Environment (Python 3.8+) Interne Passing Juice
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Not running on a local machine? - Data transfer Interne Passing Juice
Execution and the BIDS format Interne Passing Juice
Command-Line Arguments Interne Passing Juice
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Options to handle performance Interne Passing Juice
Options for performing only a subset of the workflow Interne Passing Juice
Workflow configuration Interne Passing Juice
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[DEPRECATED] Options for running ICA_AROMA Interne Passing Juice
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Specific options for FreeSurfer preprocessing Interne Passing Juice
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The command-line interface of the docker wrapper Interne Passing Juice
The FreeSurfer license Interne Passing Juice
Reusing precomputed derivatives Interne Passing Juice
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Preprocessing of structural MRI Interne Passing Juice
Brain extraction, brain tissue segmentation and spatial normalization Interne Passing Juice
Cost function masking during spatial normalization Interne Passing Juice
Longitudinal processing Interne Passing Juice
Surface preprocessing Interne Passing Juice
Refinement of the brain mask Interne Passing Juice
BOLD preprocessing Interne Passing Juice
BOLD reference image estimation Interne Passing Juice
Head-motion estimation Interne Passing Juice
Slice time correction Interne Passing Juice
Susceptibility Distortion Correction (SDC) Interne Passing Juice
Pre-processed BOLD in native space Interne Passing Juice
EPI to T1w registration Interne Passing Juice
Resampling BOLD runs onto standard spaces Interne Passing Juice
EPI sampled to FreeSurfer surfaces Interne Passing Juice
HCP Grayordinates Interne Passing Juice
Confounds estimation Interne Passing Juice
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Preprocessing blocks depending on standard templates Interne Passing Juice
What if I find some images have undergone some pre-processing already (e.g., my T1w image is already skull-stripped)? Interne Passing Juice
Running subjects in parallel Interne Passing Juice
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Workflows Interne Passing Juice
fMRIPrep base processing workflows Interne Passing Juice
Pre-processing fMRI - BOLD signal workflows Interne Passing Juice
23.1.3 (June 24, 2023) Interne Passing Juice
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