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fmriprep/info.py

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"that is robust to differences in scan acquisition protocols and that requires "
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"minimal user input, while providing easily interpretable and comprehensive "
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"error and output reporting.")
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__longdesc__ = ("This package is a functional magnetic resonance image preprocessing pipeline "
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"that is designed to provide an easily accessible, state-of-the-art interface "
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"that is robust to differences in scan acquisition protocols and that requires "
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"minimal user input, while providing easily interpretable and comprehensive error "
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"and output reporting. This open-source neuroimaging data processing tool is "
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"being developed as a part of the MRI image analysis and reproducibility platform "
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"offered by the CRN. This pipeline is heavily influenced by the `Human Connectome "
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"Project analysis pipelines "
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"<https://github.com/Washington-University/Pipelines>`_ and, as such, the "
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"backbone of this pipeline is a python reimplementation of the HCP "
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"`GenericfMRIVolumeProcessingPipeline.sh` script. However, a major difference is "
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"that this pipeline is executed using a `nipype workflow framework "
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"<http://nipype.readthedocs.io/en/latest/>`_. This allows for each call to a "
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"software module or binary to be controlled within the workflows, which removes "
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"the need for manual curation at every stage, while still providing all the "
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"output and error information that would be necessary for debugging and "
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"interpretation purposes. The fmriprep pipeline primarily utilizes FSL tools, but "
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"also utilizes ANTs tools at several stages such as skull stripping and template "
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"registration. This pipeline was designed to provide the best software "
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"implementation for each state of preprocessing, and will be updated as newer and "
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"better neuroimaging software become available.")
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__longdesc__ = """\
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Preprocessing of functional MRI (fMRI) involves numerous steps to clean and standardize
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data before statistical analysis. Generally, researchers create ad hoc preprocessing
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workflows for each new dataset, building upon a large inventory of tools available for
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each step. The complexity of these workflows has snowballed with rapid advances in MR data
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acquisition and image processing techniques. We introduce fMRIPrep, an analysis-agnostic
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tool that addresses the challenge of robust and reproducible preprocessing for task-based
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and resting fMRI data. FMRIPrep automatically adapts a best-in-breed workflow to the
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idiosyncrasies of virtually any dataset, ensuring high-quality preprocessing with no
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manual intervention. By introducing visual assessment checkpoints into an iterative
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integration framework for software-testing, we show that fMRIPrep robustly produces
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high-quality results on a diverse fMRI data collection comprising participants from
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54 different studies in the OpenfMRI repository. We review the distinctive features of
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fMRIPrep in a qualitative comparison to other preprocessing workflows. FMRIPrep achieves
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higher spatial accuracy as it introduces less uncontrolled spatial smoothness than commonly
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used preprocessing tools. FMRIPrep has the potential to transform fMRI research by equipping
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neuroscientists with a high-quality, robust, easy-to-use and transparent preprocessing workflow
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which can help ensure the validity of inference and the interpretability of their results.
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[Pre-print https://doi.org/10.1101/306951]"""
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DOWNLOAD_URL = (
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'https://github.com/poldracklab/{name}/archive/{ver}.tar.gz'.format(

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