Citing qsiprep

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Brett2001

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Jezzard1995

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Huntenburg2014

Huntenburg, J. M. (2014) Evaluating Nonlinear Coregistration of BOLD EPI and T1w Images. Berlin: Master Thesis, Freie Universität. PDF.

Treiber2016

Treiber, J. M. et al. (2016) Characterization and Correction of Geometric Distortions in 814 Diffusion Weighted Images, PLoS ONE 11(3): e0152472. doi:10.1371/journal.pone.0152472.

Wang2017

Wang S, et al. (2017) Evaluation of Field Map and Nonlinear Registration Methods for Correction of Susceptibility Artifacts in Diffusion MRI. Front. Neuroinform. 11:17.

Jeurissen2014

Jeurissen, B.; Tournier, J.-D.; Dhollander, T.; Connelly, A. & Sijbers, J. Multi-tissue constrained spherical deconvolution for improved analysis of multi-shell diffusion MRI data. NeuroImage, 2014, 103, 411-426

Dhollander2016

Dhollander, T. & Connelly, A. A novel iterative approach to reap the benefits of multi-tissue CSD from just single-shell (+b=0) diffusion MRI data. Proc Intl Soc Mag Reson Med, 2016, 3010

Dhollander2019

Dhollander, Thijs & Mito, Remika & Raffelt, David & Connelly, Alan. (2019). Improved white matter response function estimation for 3-tissue constrained spherical deconvolution.

Smith2012

Smith, R. E., Tournier, J. D., Calamante, F., & Connelly, A. (2012). Anatomically-constrained tractography: improved diffusion MRI streamlines tractography through effective use of anatomical information. Neuroimage, 62(3), 1924-1938.

Smith2015

Smith, R. E.; Tournier, J.-D.; Calamante, F. & Connelly, A. SIFT2: Enabling dense quantitative assessment of brain white matter connectivity using streamlines tractography. NeuroImage, 2015, 119, 338-351

Yeh2013

F.-C. Yeh, T. D. Verstynen, Y. Wang, J. C. Fernández-Miranda, and W-Y. I. Tseng, Deterministic Diffusion Fiber Tracking Improved By Quantitative Anisotropy, PLoS ONE 8(11): e80713. doi:10.1371/journal.pone.0080713

Yeh2019

Yeh, F. C., Zaydan, I. M., Suski, V. R., Lacomis, D., Richardson, R. M., Maroon, J., & Barrios-Martinez, J. (2019). Differential tractography as a track-based biomarker for neuronal injury. NeuroImage, 576025.

Schaefer2017

Schaefer, A., Kong, R., Gordon, E. M., Laumann, T. O., Zuo, X. N., Holmes, A. J., … & Yeo, B. T. (2017). Local-global parcellation of the human cerebral cortex from intrinsic functional connectivity MRI. Cerebral Cortex, 28(9), 3095-3114.

Yeo2011

Thomas Yeo, B. T., Krienen, F. M., Sepulcre, J., Sabuncu, M. R., Lashkari, D., Hollinshead, M., … & Fischl, B. (2011). The organization of the human cerebral cortex estimated by intrinsic functional connectivity. Journal of neurophysiology, 106(3), 1125-1165.

Joliot2015

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Fan2016

Lingzhong Fan, Hai Li, Junjie Zhuo, Yu Zhang, Jiaojian Wang, Liangfu Chen, Zhengyi Yang, Congying Chu, # Sangma Xie, Angela R. Laird, Peter T. Fox, Simon B. Eickhoff, Chunshui Yu, and Tianzi Jiang, “The Human # Brainnetome Atlas: A New Brain Atlas Based on Connectional Architecture”, Cerebral Cortex, 2016

Gordon2014

Gordon, E. M., Laumann, T. O., Adeyemo, B., Huckins, J. F., Kelley, W. M., & Petersen, S. E. (2014). Generation and evaluation of a cortical area parcellation from resting-state correlations. Cerebral cortex, 26(1), 288-303.

TzourioMazoyer2002

Tzourio-Mazoyer, N., Landeau, B., Papathanassiou, D., Crivello, F., Etard, O., Delcroix, N., … & Joliot, M. (2002). Automated anatomical labeling of activations in SPM using a macroscopic anatomical parcellation of the MNI MRI single-subject brain. Neuroimage, 15(1), 273-289.

Power2011

Power, J. D., Cohen, A. L., Nelson, S. M., Wig, G. S., Barnes, K. A., Church, J. A., … & Petersen, S. E. (2011). Functional network organization of the human brain. Neuron, 72(4), 665-678.

Daducci2015

Daducci, Alessandro, et al. “Accelerated microstructure imaging via convex optimization (AMICO) from diffusion MRI data.” NeuroImage 105 (2015): 32-44.

Zhang2012

Zhang, Hui, et al. “NODDI: practical in vivo neurite orientation dispersion and density imaging of the human brain.” Neuroimage 61.4 (2012): 1000-1016.

Smith2020

Smith, R.; Skoch, A.; Bajada, C.; Caspers, S.; Connelly, A. Hybrid Surface- Volume Segmentation for improved Anatomically-Constrained Tractography. In Proc OHBM 2020