This is an example code used for the analysis in the work "Identification of transdiagnostic psychiatric disorder subtypes using unsupervised learning": Pelin et al., medRxiv 2021.02.04.21251083; doi: https://doi.org/10.1101/2021.02.04.21251083
Main packages used in the analysis:
- HDClassif v. 2.1.0 (Berg L, Bouveyron C, Girard S. HDclassif: An R Package for Model-Based Clustering and Discriminant Analysis of High-Dimensional Data. J Stat Softw. 2012;46.)
- diceR v. 0.6 (Chiu D, Talhouk A. DiceR: An R package for class discovery using an ensemble driven approach. BMC Bioinformatics. 2018;19.)
- glmnet v. 2.0.16 (Friedman J, Hastie T, Tibshirani R. Regularization Paths for Generalized Linear Models via Coordinate Descent. J Stat Software, Artic. 2010;33.)
- optimalCutpoints v. 1.14 (López-Ratón M, Rodríguez-Álvarez MX, Cadarso-Suárez C, Gude-Sampedro F. OptimalCutpoints: An R Package for Selecting Optimal Cutpoints in Diagnostic Tests. J Stat Software; Vol 1, Issue 8. 2014. 13 November 2014.)
- multtest v. 2.40 (Pollard KS, Dudoit S, van der Laan MJ. Multiple Testing Procedures: R multtest Package and Applications to Genomics, in Bioinformatics and Computational Biology Solutions Using R and Bioconductor. Springer; 2005.)