XCP-D : A Robust Postprocessing Pipeline of fMRI data

GitHub Repository Documentation Docker Test Status DOI License

This fMRI post-processing and noise regression pipeline is developed by the Satterthwaite lab at the University of Pennslyvania (XCP; eXtensible Connectivity Pipeline) and Developmental Cognition and Neuroimaging lab at the University of Minnesota (-DCAN) for open-source software distribution.

About

XCP-D paves the final section of the reproducible and scalable route from the MRI scanner to functional connectivity data in the hands of neuroscientists. We developed XCP-D to extend the BIDS and NiPrep apparatus to the point where data is most commonly consumed and analyzed by neuroscientists studying functional connectivity. Thus, with the development of XCP-D, data can be automatically preprocessed and analyzed in BIDS format, using NiPrep-style containerized code, all the way from the from the scanner to functional connectivity matrices.

XCP-D picks up right where fMRIprep ends, directly consuming the outputs of fMRIPrep. XCP-D leverages the BIDS and NiPrep frameworks to automatically generate denoised BOLD images, parcellated time series, functional connectivity matrices, and quality assessment reports. XCP-D can also process outputs from: NiBabies, DCAN and Minimally preprocessed HCP data.

https://raw.githubusercontent.com/pennlinc/xcp_d/main/docs/_static/schematic_land-01.png

See the documentation for more details.

License

BSD 3-Clause License

Copyright (c) 2020, Lifespan Informatics and Neuroimaging Center

Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:

  1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer.

  2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.

  3. Neither the name of the copyright holder nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS “AS IS” AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

Contents