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24 | 24 | "that is robust to differences in scan acquisition protocols and that requires "
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25 | 25 | "minimal user input, while providing easily interpretable and comprehensive "
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26 | 26 | "error and output reporting.")
|
27 |
| -__longdesc__ = ("This package is a functional magnetic resonance image preprocessing pipeline " |
28 |
| - "that is designed to provide an easily accessible, state-of-the-art interface " |
29 |
| - "that is robust to differences in scan acquisition protocols and that requires " |
30 |
| - "minimal user input, while providing easily interpretable and comprehensive error " |
31 |
| - "and output reporting. This open-source neuroimaging data processing tool is " |
32 |
| - "being developed as a part of the MRI image analysis and reproducibility platform " |
33 |
| - "offered by the CRN. This pipeline is heavily influenced by the `Human Connectome " |
34 |
| - "Project analysis pipelines " |
35 |
| - "<https://github.com/Washington-University/Pipelines>`_ and, as such, the " |
36 |
| - "backbone of this pipeline is a python reimplementation of the HCP " |
37 |
| - "`GenericfMRIVolumeProcessingPipeline.sh` script. However, a major difference is " |
38 |
| - "that this pipeline is executed using a `nipype workflow framework " |
39 |
| - "<http://nipype.readthedocs.io/en/latest/>`_. This allows for each call to a " |
40 |
| - "software module or binary to be controlled within the workflows, which removes " |
41 |
| - "the need for manual curation at every stage, while still providing all the " |
42 |
| - "output and error information that would be necessary for debugging and " |
43 |
| - "interpretation purposes. The fmriprep pipeline primarily utilizes FSL tools, but " |
44 |
| - "also utilizes ANTs tools at several stages such as skull stripping and template " |
45 |
| - "registration. This pipeline was designed to provide the best software " |
46 |
| - "implementation for each state of preprocessing, and will be updated as newer and " |
47 |
| - "better neuroimaging software become available.") |
| 27 | +__longdesc__ = """\ |
| 28 | +Preprocessing of functional MRI (fMRI) involves numerous steps to clean and standardize |
| 29 | +data before statistical analysis. Generally, researchers create ad hoc preprocessing |
| 30 | +workflows for each new dataset, building upon a large inventory of tools available for |
| 31 | +each step. The complexity of these workflows has snowballed with rapid advances in MR data |
| 32 | +acquisition and image processing techniques. We introduce fMRIPrep, an analysis-agnostic |
| 33 | +tool that addresses the challenge of robust and reproducible preprocessing for task-based |
| 34 | +and resting fMRI data. FMRIPrep automatically adapts a best-in-breed workflow to the |
| 35 | +idiosyncrasies of virtually any dataset, ensuring high-quality preprocessing with no |
| 36 | +manual intervention. By introducing visual assessment checkpoints into an iterative |
| 37 | +integration framework for software-testing, we show that fMRIPrep robustly produces |
| 38 | +high-quality results on a diverse fMRI data collection comprising participants from |
| 39 | +54 different studies in the OpenfMRI repository. We review the distinctive features of |
| 40 | +fMRIPrep in a qualitative comparison to other preprocessing workflows. FMRIPrep achieves |
| 41 | +higher spatial accuracy as it introduces less uncontrolled spatial smoothness than commonly |
| 42 | +used preprocessing tools. FMRIPrep has the potential to transform fMRI research by equipping |
| 43 | +neuroscientists with a high-quality, robust, easy-to-use and transparent preprocessing workflow |
| 44 | +which can help ensure the validity of inference and the interpretability of their results. |
| 45 | +
|
| 46 | +[Pre-print https://doi.org/10.1101/306951]""" |
48 | 47 |
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49 | 48 | DOWNLOAD_URL = (
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50 | 49 | 'https://github.com/poldracklab/{name}/archive/{ver}.tar.gz'.format(
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