References

Gevers, Dirk, Subra Kugathasan, Lee A Denson, Yoshiki Vázquez-Baeza, Will Van Treuren, Boyu Ren, Emma Schwager, et al. 2014. “The Treatment-Naive Microbiome in New-Onset Crohn’s Disease.” Cell Host & Microbe 15 (3). Elsevier: 382–92.

Gonzalez, Antonio, Jose A Navas-Molina, Tomasz Kosciolek, Daniel McDonald, Yoshiki Vázquez-Baeza, Gail Ackermann, Jeff DeReus, et al. 2018. “Qiita: Rapid, Web-Enabled Microbiome Meta-Analysis.” Nature Methods 15 (10). Nature Publishing Group: 796–98.

Le Cessie, Saskia, and Johannes C Van Houwelingen. 1992. “Ridge Estimators in Logistic Regression.” Journal of the Royal Statistical Society: Series C (Applied Statistics) 41 (1). Wiley Online Library: 191–201.

Lex, Alexander, Nils Gehlenborg, Hendrik Strobelt, Romain Vuillemot, and Hanspeter Pfister. 2014. “UpSet: Visualization of Intersecting Sets.” IEEE Transactions on Visualization and Computer Graphics 20 (12). IEEE: 1983–92.

Lin, Wei, Pixu Shi, Rui Feng, and Hongzhe Li. 2014. “Variable Selection in Regression with Compositional Covariates.” Biometrika 101 (4). Oxford University Press: 785–97.

Lu, Jiarui, Pixu Shi, and Hongzhe Li. 2019. “Generalized Linear Models with Linear Constraints for Microbiome Compositional Data.” Biometrics 75 (1). Wiley Online Library: 235–44.

Rivera-Pinto, J, JJ Egozcue, Vera Pawlowsky-Glahn, Raul Paredes, Marc Noguera-Julian, and ML Calle. 2018. “Balances: A New Perspective for Microbiome Analysis.” MSystems 3 (4). Am Soc Microbiol: e00053–18.

Rohart, Florian, Aida Eslami, Nicholas Matigian, Stephanie Bougeard, and Kim-Anh Le Cao. 2017. “MINT: A Multivariate Integrative Method to Identify Reproducible Molecular Signatures Across Independent Experiments and Platforms.” BMC Bioinformatics 18 (1). BioMed Central: 128.

Tibshirani, Robert. 1996. “Regression Shrinkage and Selection via the Lasso.” Journal of the Royal Statistical Society: Series B (Methodological) 58 (1). Wiley Online Library: 267–88.

Zou, Hui, and Trevor Hastie. 2005. “Regularization and Variable Selection via the Elastic Net.” Journal of the Royal Statistical Society: Series B (Statistical Methodology) 67 (2). Wiley Online Library: 301–20.