Subgroup analysis software

Navigation

Back to Subgroup analysis.

Back to QSPI Subgroup Analysis Working Group.

Instructions

Google Chrome is required to download the ZIP files posted on this page. Copy and paste the page address in a Google Chrome window, click on the link for the ZIP file, select File in the horizontal menu and choose Download (Ctrl+S).

Software for subgroup identification

SIDES method

R package SIDES implementing the regular SIDES method  (Subgroup Identification Based on Differential Effect Search) based on Lipkovich et al. (2011) [last update: October 04, 2016]. The package is maintained by Marie-Karelle Riviere (eldamjh@gmail.com).

Download the SIDESxl package (an Excel add-in) which implements the regular SIDES and SIDEScreen methods [last update: March 25, 2016]. The package is maintained by Ilya Lipkovich (ilya.lipkovich@quintiles.com).

Download the R functions, C++ functions (sides64.dll), and examples for the regular SIDES (Lipkovich et al., 2011)
and SIDEScreen (Lipkovich and Dmitrienko, 2014)  methods [last update: December 13, 2016]. The functions and examples are provided by Ilya Lipkovich (ilya.lipkovich@quintiles.com)

Interaction Trees method

Download the R functions and examples for the Interaction Trees method [last update: Dec 30, 2014]. The functions and examples are provided by Xiaogang Su (Xiaogang Su’s site).

Download the R code for the Interaction Trees method [last update: Dec 30, 2014].

Virtual Twins method

Download the R code for the Virtual Twins method [last update: Dec 30, 2014]. The code is provided by Jared Foster (jaredcf@umich.edu)

R package aVirtualTwins , implementing an adaptation of the Virtual Twins method  by  Foster et al. (2011)

GUIDE package

GUIDE package for classification and regression trees now includes methods for subgroup identification. The GUIDE package is maintained by Wei-Yin Loh (Wei-Yin Loh’s site).

For more information on the subgroup identification features, see Section 5.10 of the GUIDE User Manual [last update: February 11, 2015] and paper by Wei-Yin Loh, Xu He and Michael Man.

QUINT method

Quint package for QUalitative INteraction Trees. The package is maintained by Elise Dusseldorp (Elise Dusseldorp’s site) and colleagues.

Reference: Dusseldorp and Mechelen (2014).

FindIt method

FindIt package for finding heterogeneous treatment effects [last update: February 27, 2015].

Reference: Imai and Ratkovic (2013).

Blasso method

Download the R functions for the Bayesian two-stage Lasso strategy for biomarker selection for time-to-event endpoints [last update: December 16, 2014]. The code is provided by Xuemin Gu (xuemin.gu@bms.com).

Reference: Gu, Yin and Lee (2013).

ROWSi method

Download the R code for the ROWSi method (Regularized Outcome Weighted Subgroup identification).

Reference: Yu et al. (2015).

Model-based Recursive Partitioning

R partykit package: A Toolkit for Recursive Partytioning, which can perform subgroup analyses using the functions lmtree(), glmtree() (or more generally, mob()) and ctree()). See examples of subgroup analysis in references:

References: Seibold et al. (2015) and Seibold et al. (2016)