Quantitative Imaging Derived Biomarkers in BIDS

Matlab test results Documentation status GPL-v3.0 license Zenodo

QuIDBBIDS is a MATLAB BIDS-app that enables researchers to easily preprocess and compute quantitative MRI biomarkers using standardized BIDS data. By simplifying workflow creation and ensuring reproducibility, QuIDBBIDS lowers barriers for large-scale neuroimaging studies and supports broader clinical translation of quantitative MRI methods.

We focus on relaxometry metrics derivable from (multi-echo) gradient-echo and RF-spoiled sequences, including:

  • Longitudinal Relaxation (R1, both based on variable flip angle GRE and MP2RAGE acquisitions in combination with transmit field B1 maps)

  • Effective Transverse Relaxation (R2*)

  • Susceptibility (QSM) and Multi-compartment relaxometry Myelin Water Imaging (MCR-MWI - based on VFA acquisition)

QuIDBBIDS uses a novel declarative framework in which users specify desired (biomarker) outputs, and the software dynamically builds and executes the necessary workflow from a library of modular “workers”.

QuIDBBIDS is a work-in-progress (WIP) that is being developed at the Donders Institute of the Radboud University.

Note

  • All source code is hosted at GitHub and freely available under the GPL-3.0-or-later license.

  • The full QuIDBBIDS documentation is hosted at Read the Docs

  • You are encouraged to post issues or questions at GitHub