Trajectory-based differential expression analysis for single-cell sequencing data

Koen Van den Berge, Hector Roux de Bézieux, Kelly Street, Wouter Saelens, Robrecht Cannoodt, Yvan Saeys, Sandrine Dudoit & Lieven Clement
Nature Communications
March 5, 2020

scPCA: A toolbox for sparse contrastive principal component analysis in R

Philippe Boileau1, Nima S. Hejazi, and Sandrine Dudoit
The Journal of Open Source Software
February 25, 2020

One size does not fit all: Customizing MCMC methods for hierarchical models using NIMBLE

Lauren C. Ponisio, Perry de Valpine, Nicholas Michaud, Daniel Turek
Ecology and Evolution
February 14, 2020

Veridical data science

Bin Yu and Karl Kumbier
Proceedings of the National Academy of Sciences (PNAS)
February 13, 2020

SciPy 1.0: fundamental algorithms for scientific computing in Python

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 & SciPy 1.0 Contributors
Nature Methods
February 3, 2020

NumPy: A look at the past, present, and future of array computation

Ross Barnowski
Michigan Institute of Data Science (MiDAS)
January 30, 2020

#Vape: Measuring E-Cigarette Influence on Instagram With Deep Learning and Text Analysis

Julia Vassey, Catherine Metayer, Chris J. Kennedy and Todd P. Whitehead
Frontiers in Communication
January 22, 2020

Garbage In, Garbage Out? Do Machine Learning Application Papers in Social Computing Report Where Human-Labeled Training Data Comes From?

R. Stuart Geiger, Kevin Yu, Yanlai Yang, Mindy Dai, Jie Qiu, Rebekah Tang, Jenny Huang
December 17, 2019

Early immune stimulation and childhood acute lymphoblastic leukemia in Costa Rica: A comparison of statistical approaches

Sophia Colombari Figueroa, Chris J. Kennedy, Catharina Wesseling, Joseph M. Wiemels, Libby Morimoto, Ana M. Mora
Environmental Research
December 10, 2019

Definitions, methods, and applications in interpretable machine learning

W. James Murdoch, Chandan Singh, Karl Kumbier, Reza Abbasi-Asl, and Bin Yu
PNAS (Proceedings of the National Academy of Sciences of the United States of America)
October 16, 2019