AEGG08

B B Avants, C L Epstein, M Grossman, and J C Gee. Symmetric diffeomorphic image registration with cross-correlation: evaluating automated labeling of elderly and neurodegenerative brain. Med. Image Anal., 12(1):26–41, February 2008.

Bre01

Leo Breiman. Statistical modeling: the two cultures (with comments and a rejoinder by the author). Statistical science, 16(3):199–231, 2001.

BIM+13

Katherine S Button, John P A Ioannidis, Claire Mokrysz, Brian A Nosek, Jonathan Flint, Emma S J Robinson, and Marcus R Munafò. Power failure: why small sample size undermines the reliability of neuroscience. Nat. Rev. Neurosci., 14(5):365–376, May 2013.

Can86

J Canny. A computational approach to edge detection. IEEE Trans. Pattern Anal. Mach. Intell., 8(6):679–698, June 1986.

DMOconnorC+17

Adriana Di Martino, David O’connor, Bosi Chen, Kaat Alaerts, Jeffrey S Anderson, Michal Assaf, Joshua H Balsters, Leslie Baxter, Anita Beggiato, Sylvie Bernaerts, and others. Enhancing studies of the connectome in autism using the autism brain imaging data exchange ii. Scientific data, 4(1):1–15, 2017.

Egl07

Ron Eglash. Broken metaphor: the master-slave analogy in technical literature. Technology and Culture, 48(2):360–369, 2007.

EMB+19

Oscar Esteban, Christopher J Markiewicz, Ross W Blair, Craig A Moodie, A Ilkay Isik, Asier Erramuzpe, James D Kent, Mathias Goncalves, Elizabeth DuPre, Madeleine Snyder, Hiroyuki Oya, Satrajit S Ghosh, Jessey Wright, Joke Durnez, Russell A Poldrack, and Krzysztof J Gorgolewski. fMRIPrep: a robust preprocessing pipeline for functional MRI. Nat. Methods, 16(1):111–116, January 2019.

Fis12

Bruce Fischl. Freesurfer. Neuroimage, 62(2):774–781, 2012.

GCR+16

Matthew F Glasser, Timothy S Coalson, Emma C Robinson, Carl D Hacker, John Harwell, Essa Yacoub, Kamil Ugurbil, Jesper Andersson, Christian F Beckmann, Mark Jenkinson, Stephen M Smith, and David C Van Essen. A multi-modal parcellation of human cerebral cortex. Nature, 536(7615):171–178, 08 2016. URL: https://pubmed.ncbi.nlm.nih.gov/27437579, doi:10.1038/nature18933.

GAAA+17

Krzysztof J Gorgolewski, Fidel Alfaro-Almagro, Tibor Auer, Pierre Bellec, Mihai Capotă, M Mallar Chakravarty, Nathan W Churchill, Alexander Li Cohen, R Cameron Craddock, Gabriel A Devenyi, Anders Eklund, Oscar Esteban, Guillaume Flandin, Satrajit S Ghosh, J Swaroop Guntupalli, Mark Jenkinson, Anisha Keshavan, Gregory Kiar, Franziskus Liem, Pradeep Reddy Raamana, David Raffelt, Christopher J Steele, Pierre-Olivier Quirion, Robert E Smith, Stephen C Strother, Gaël Varoquaux, Yida Wang, Tal Yarkoni, and Russell A Poldrack. BIDS apps: improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods. PLoS Comput. Biol., 13(3):e1005209, March 2017.

GPerez21

Brian E Granger and Fernando Pérez. Jupyter: thinking and storytelling with code and data. Computing in Science Engineering, 23(2):7–14, March 2021.

HMvdW+20

Charles R Harris, K Jarrod Millman, Stéfan J van der Walt, Ralf Gommers, Pauli Virtanen, David Cournapeau, Eric Wieser, Julian Taylor, Sebastian Berg, Nathaniel J Smith, Robert Kern, Matti Picus, Stephan Hoyer, Marten H van Kerkwijk, Matthew Brett, Allan Haldane, Jaime Fernández del Río, Mark Wiebe, Pearu Peterson, Pierre Gérard-Marchant, Kevin Sheppard, Tyler Reddy, Warren Weckesser, Hameer Abbasi, Christoph Gohlke, and Travis E Oliphant. Array programming with NumPy. Nature, 585(7825):357–362, September 2020.

HPC+20

Mahan Hosseini, Michael Powell, John Collins, Chloe Callahan-Flintoft, William Jones, Howard Bowman, and Brad Wyble. I tried a bunch of things: the dangers of unexpected overfitting in classification of brain data. Neurosci. Biobehav. Rev., 119:456–467, December 2020.

MZPR02

Robert C MacCallum, Shaobo Zhang, Kristopher J Preacher, and Derek D Rucker. On the practice of dichotomization of quantitative variables. Psychol. Methods, 7(1):19–40, March 2002.

MH80

D Marr and E Hildreth. Theory of edge detection. Proc. R. Soc. Lond. B Biol. Sci., 207(1167):187–217, February 1980.

NAK21

Thomas Naselaris, Emily Allen, and Kendrick Kay. Extensive sampling for complete models of individual brains. Current Opinion in Behavioral Sciences, 40:45–51, August 2021.

NIVDWD17

Juan Nunez-Iglesias, Stéfan Van Der Walt, and Harriet Dashnow. Elegant SciPy: The art of scientific python. " O'Reilly Media, Inc.", 2017.

Ots79

Nobuyuki Otsu. A threshold selection method from gray-level histograms. IEEE Transactions on Systems, Man, and Cybernetics, 9(1):62–66, 1979. doi:10.1109/TSMC.1979.4310076.

PGH10

Fernando Perez, Brian E Granger, and John D Hunter. Python: an ecosystem for scientific computing. Comput. Sci. Eng., 13(2):13–21, 2010.

RK20

Ariel Rokem and Kendrick Kay. Fractional ridge regression: a fast, interpretable reparameterization of ridge regression. Gigascience, November 2020.

Shm10

Galit Shmueli. To explain or to predict? Statistical science, 25(3):289–310, 2010.

SHK+14

Nitish Srivastava, Geoffrey Hinton, Alex Krizhevsky, Ilya Sutskever, and Ruslan Salakhutdinov. Dropout: a simple way to prevent neural networks from overfitting. The Journal of Machine Learning Research, 15(1):1929–1958, 2014.

VHGK+01

John D Van Horn, Jeffrey S Grethe, Peter Kostelec, Jeffrey B Woodward, Javed A Aslam, Daniela Rus, Daniel Rockmore, and Michael S Gazzaniga. The functional magnetic resonance imaging data center (fmridc): the challenges and rewards of large–scale databasing of neuroimaging studies. Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences, 356(1412):1323–1339, 2001.

VH16

John Darrell Van Horn. Opinion: big data biomedicine offers big higher education opportunities. Proc. Natl. Acad. Sci. U. S. A., 113(23):6322–6324, June 2016.

Var17

Gaël Varoquaux. Cross-validation failure: small sample sizes lead to large error bars. Neuroimage, June 2017.

VGO+20

Pauli Virtanen, Ralf Gommers, Travis E Oliphant, Matt Haberland, Tyler Reddy, David Cournapeau, Evgeni Burovski, Pearu Peterson, Warren Weckesser, Jonathan Bright, Stéfan J van der Walt, Matthew Brett, Joshua Wilson, K Jarrod Millman, Nikolay Mayorov, Andrew R J Nelson, Eric Jones, Robert Kern, Eric Larson, C J Carey, İlhan Polat, Yu Feng, Eric W Moore, Jake VanderPlas, Denis Laxalde, Josef Perktold, Robert Cimrman, Ian Henriksen, E A Quintero, Charles R Harris, Anne M Archibald, Antônio H Ribeiro, Fabian Pedregosa, Paul van Mulbregt, and SciPy 1.0 Contributors. SciPy 1.0: fundamental algorithms for scientific computing in python. Nat. Methods, 17(3):261–272, March 2020.

Wic14

Hadley Wickham. Tidy data. Journal of statistical software, 59(1):1–23, 2014.

YW17

Tal Yarkoni and Jacob Westfall. Choosing prediction over explanation in psychology: lessons from machine learning. Perspectives on Psychological Science, 12(6):1100–1122, 2017.