References

[BMG+10]

Felix Bießmann, Frank C. Meinecke, Arthur Gretton, Alexander Rauch, Gregor Rainer, Nikos K. Logothetis, and Klaus-Robert Müller. Temporal kernel CCA and its application in multimodal neuronal data analysis. Machine Learning, 79(1-2):5–27, May 2010. URL: http://link.springer.com/10.1007/s10994-009-5153-3 (visited on 2025-03-05), doi:10.1007/s10994-009-5153-3.

[CBL+13]

J. Chen, F. D. Bushman, J. D. Lewis, G. D. Wu, and H. Li. Structure-constrained sparse canonical correlation analysis with an application to microbiome data analysis. Biostatistics, 14(2):244–258, April 2013. URL: https://academic.oup.com/biostatistics/article-lookup/doi/10.1093/biostatistics/kxs038 (visited on 2025-01-20), doi:10.1093/biostatistics/kxs038.

[DEY+09]

Hamid Dehghani, Matthew E Eames, Phaneendra K Yalavarthy, Scott C Davis, Subhadra Srinivasan, Colin M Carpenter, Brian W Pogue, and Keith D Paulsen. Near infrared optical tomography using nirfast: algorithm for numerical model and image reconstruction. Communications in numerical methods in engineering, 25(6):711–732, 2009.

[DBM+13]

Sven Dähne, Felix Bießmann, Frank C. Meinecke, Jan Mehnert, Siamac Fazli, and Klaus-Robert Müller. Integration of multivariate data streams with bandpower signals. IEEE Transactions on Multimedia, 15(5):1001–1013, 2013. doi:10.1109/TMM.2013.2250267.

[DMH+14]

Sven Dähne, Frank C. Meinecke, Stefan Haufe, Johannes Höhne, Michael Tangermann, Klaus-Robert Müller, and Vadim V. Nikulin. SPoC: A novel framework for relating the amplitude of neuronal oscillations to behaviorally relevant parameters. NeuroImage, 86:111–122, 2014. URL: https://www.sciencedirect.com/science/article/pii/S1053811913008483, doi:https://doi.org/10.1016/j.neuroimage.2013.07.079.

[FB09]

Qianqian Fang and David A Boas. Monte carlo simulation of photon migration in 3d turbid media accelerated by graphics processing units. Optics express, 17(22):20178–20190, 2009.

[FPA+14]

Geng-Shen Fu, Ronald Phlypo, Matthew Anderson, Xi-Lin Li, and Tulay Adali. Blind Source Separation by Entropy Rate Minimization. IEEE Transactions on Signal Processing, 62(16):4245–4255, Aug 2014. URL: http://ieeexplore.ieee.org/document/6845364/ (visited on 2022-11-21), doi:10.1109/TSP.2014.2333563.

[GHLG15]

James S. Gao, Alexander G. Huth, Mark D. Lescroart, and Jack L. Gallant. Pycortex: an interactive surface visualizer for fmri. Frontiers in Neuroinformatics, 2015. URL: https://www.frontiersin.org/journals/neuroinformatics/articles/10.3389/fninf.2015.00023, doi:10.3389/fninf.2015.00023.

[HM22]

Nils Harmening and Daniel Miklody. MRIsegmentation. 11 2022. URL: https://github.com/harmening/MRIsegmentation, doi:10.5281/zenodo.7357674.

[HHC+98]

Colin J. Holmes, Rick Hoge, Louis Collins, Roger Woods, Arthur W. Toga, and Alan C. Evans. Enhancement of mr images using registration for signal averaging. Journal of Computer Assisted Tomography, 22(2):324–333, March 1998. URL: https://journals.lww.com/jcat/abstract/1998/03000/enhancement_of_mr_images_using_registration_for.32.aspx, doi:10.1097/00004728-199803000-00032.

[HDS+13]

Yu Huang, Jacek Dmochowski, Yuzhuo Su, Abhishek Datta, Chris Rorden, and Lucas Parra. Automated mri segmentation for individualized modeling of current flow in the human head. Journal of neural engineering, 10:066004, 10 2013. doi:10.1088/1741-2560/10/6/066004.

[HDFB09]

Theodore J. Huppert, Solomon G. Diamond, Maria A. Franceschini, and David A. Boas. Homer: a review of time-series analysis methods for near-infrared spectroscopy of the brain. Appl. Opt., 48(10):D280–D298, Apr 2009. URL: https://github.com/BUNPC/Homer3, doi:https://doi.org/10.1364/AO.48.00D280.

[JSBY18]

Sahar Jahani, Seyed K. Setarehdan, David A. Boas, and Meryem A. Yücel. Motion artifact detection and correction in functional near-infrared spectroscopy: a new hybrid method based on spline interpolation method and Savitzky–Golay filtering. Neurophotonics, 5(01):1, February 2018. URL: https://www.spiedigitallibrary.org/journals/neurophotonics/volume-5/issue-01/015003/Motion-artifact-detection-and-correction-in-functional-near-infrared-spectroscopy/10.1117/1.NPh.5.1.015003.full (visited on 2022-11-21), doi:10.1117/1.NPh.5.1.015003.

[LA10a]

Xi-Lin Li and Tulay Adali. Blind spatiotemporal separation of second and/or higher-order correlated sources by entropy rate minimization. In 2010 IEEE International Conference on Acoustics, Speech and Signal Processing, 1934–1937. Dallas, TX, March 2010. IEEE. URL: http://ieeexplore.ieee.org/document/5495311/ (visited on 2024-04-17), doi:10.1109/ICASSP.2010.5495311.

[LA10b]

Xi-Lin Li and Tülay Adali. Independent Component Analysis by Entropy Bound Minimization. IEEE Transactions on Signal Processing, 58(10):5151–5164, Oct 2010. URL: http://ieeexplore.ieee.org/document/5499122/ (visited on 2024-01-09), doi:10.1109/TSP.2010.2055859.

[LM21a]

Robert Luke and David McAlpine. fNIRS Finger Tapping Data in BIDS Format. September 2021. URL: https://github.com/rob-luke/BIDS-NIRS-Tapping, doi:10.5281/zenodo.5529797.

[LM21b]

Robert Luke and David McAlpine. fNIRS Finger Tapping Data in BIDS Format. September 2021. URL: https://github.com/rob-luke/BIDS-NIRS-Tapping, doi:10.5281/zenodo.5529797.

[OP01]

Robert Oostenveld and Peter Praamstra. The five percent electrode system for high-resolution eeg and erp measurements. Clinical Neurophysiology, 112(4):713–719, 2001. doi:https://doi.org/10.1016/S1388-2457(00)00527-7.

[PTB09]

Elena Parkhomenko, David Tritchler, and Joseph Beyene. Sparse Canonical Correlation Analysis with Application to Genomic Data Integration. Statistical Applications in Genetics and Molecular Biology, 2009. URL: https://doi.org/10.2202/1544-6115.1406 (visited on 2025-03-21), doi:doi:10.2202/1544-6115.1406.

[PBO16]

Luca Pollonini, Heather Bortfeld, and John S. Oghalai. PHOEBE: a method for real time mapping of optodes-scalp coupling in functional near-infrared spectroscopy. Biomedical Optics Express, 7(12):5104, Dec 2016. URL: https://opg.optica.org/abstract.cfm?URI=boe-7-12-5104 (visited on 2022-11-21), doi:10.1364/BOE.7.005104.

[POA+14]

Luca Pollonini, Cristen Olds, Homer Abaya, Heather Bortfeld, Michael S. Beauchamp, and John S. Oghalai. Auditory cortex activation to natural speech and simulated cochlear implant speech measured with functional near-infrared spectroscopy. Hearing Research, 309:84–93, 2014. doi:https://doi.org/10.1016/j.heares.2013.11.007.

[SBW12]

Felix Scholkmann, Jens Boss, and Martin Wolf. An efficient algorithm for automatic peak detection in noisy periodic and quasi-periodic signals. Algorithms, 5(4):588–603, 2012. URL: https://www.mdpi.com/1999-4893/5/4/588, doi:10.3390/a5040588.

[SSE+20]

Arefeh Sherafati, Abraham Z Snyder, Adam T Eggebrecht, Karla M Bergonzi, Tracy M Burns-Yocum, Heather M Lugar, Silvina L Ferradal, Amy Robichaux-Viehoever, Christopher D Smyser, Ben J Palanca, and others. Global motion detection and censoring in high-density diffuse optical tomography. Human Brain Mapping, 41(14):4093–4112, 2020.

[TDK+22]

Stephen Tucker, Jay Dubb, Sreekanth Kura, Alexander von Lühmann, Robert Franke, Jörn M. Horschig, Samuel Powell, Robert Oostenveld, Michael Lührs, Édouard Delaire, Zahra M. Aghajan, Hanseok Yun, Meryem A. Yücel, Qianqian Fang, Theodore J. Huppert, Blaise deB. Frederick, Luca Pollonini, David A. Boas, and Robert Luke. Introduction to the shared near infrared spectroscopy format. Neurophotonics, 10(1):013507, 2022. URL: https://doi.org/10.1117/1.NPh.10.1.013507, doi:10.1117/1.NPh.10.1.013507.

[WTH09]

D. M. Witten, R. Tibshirani, and T. Hastie. A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis. Biostatistics, 10(3):515–534, July 2009. URL: https://academic.oup.com/biostatistics/article-lookup/doi/10.1093/biostatistics/kxp008 (visited on 2024-07-12), doi:10.1093/biostatistics/kxp008.

[YF20]

Shijie Yan and Qianqian Fang. Hybrid mesh and voxel based monte carlo algorithm for accurate and efficient photon transport modeling in complex bio-tissues. Biomedical Optics Express, 11(11):6262–6270, 2020.

[YNPKF18]

Leiming Yu, Fanny Nina-Paravecino, David Kaeli, and Qianqian Fang. Scalable and massively parallel monte carlo photon transport simulations for heterogeneous computing platforms. Journal of biomedical optics, 23(1):010504–010504, 2018.