Survival Analysis

adalasso

  • A computationally efficient adaptive penalization algorithm for high-dimensional survival analysis.
  • Faculty: Kevin He. Download: Github.

BivPPL

  • Bivariate frailty models for clustered events via penalized partial likelihood methods.
  • Language(s): R
  • Faculty: Peter X.K. Song. Author: Lili Wang.
  • Download: Github.

corrsurv

  • Collection of two-sample tests for treatment effects with paired censored survival data and recurrent events survival data.
  • Faculty: Susan Murray. Download: Github.
  • References: 1. Murray, Susan. Nonparametric Rank-Based Methods for Group Sequential Monitoring of Paired Censored Survival Data. 2000. Biometrics, 56, pp. 984-990. 2. Tayob, N. and Murray, S., 2014. Nonparametric tests of treatment effect based on combined endpoints for mortality and recurrent events. Biostatistics, 16(1), pp.73-83.

coxphGPLE

  • Cox model with multiple functional covariate-environment interactions, where covariate effects can be modified nonlinearly by mixtures of exposed toxicants.
  • Faculty: Peter X.K. Song. Download: Website.

FEprovideR

  • A structured profile likelihood algorithm for the logistic fixed effects model and an approximate expectation maximization (EM) algorithm for the logistic mixed effects model.
  • Faculty: Kevin He, Jack D. Kalbfleisch, Yi Li. Download: Github, CRAN.

GSMC

  • A simulation-free group sequential design with max-combo tests in the presence of non-proportional hazards.
  • Language(s): R
  • Faculty: Peter X.K. Song. Author: Lili Wang.
  • Download: Github.

IAfrac

  • Calculate sample sizes and information fractions (IF) for Fleming-Harrington class weighted log-rank tests (FH-WLRT) in interim analysis (IA).
  • Language(s): R
  • Faculty: Peter X.K. Song. Author: Lili Wang.
  • Download: Github.

JointModel

  • Joint fit of a semiparametric regression model for longitudinal responses and a semiparametric transformation model for time-to-event data.
  • Faculty: Sehee Kim. Download: CRAN.

NGM

  • Bayesian semi-parametric stochastic velocity model with Ornstein-Uhlenbeck process.
  • Faculty: Peter X.K. Song. Download: Website.

nltm

  • Non-linear transformation models (nltm) for analyzing survival data.
  • Faculty: Alexander Tsodikov. Download: Github.
  • Reference: Tsodikov, A., 2003. Semiparametric models: a generalized self‐consistency approach. Journal of the Royal Statistical Society: Series B (Statistical Methodology), 65(3), pp.759-774.

plac

  • A semi-parametric estimation method for the Cox model with left-truncated data using augmented information from the marginal of truncation times.
  • Faculty: Yi Li. Download: CRAN.
  • Reference: Wu, F., Kim, S., Qin, J., Saran, R. and Li, Y., 2018. A pairwise likelihood augmented Cox estimator for left‐truncated data. Biometrics, 74(1), pp.100-108.

SurvBoost

  • A new gradient boosting method for high-dimensional variable selection with censored outcomes using the stratified proportional hazards (PH) model.
  • Faculty: Kevin He, Yanming Li, Yi Li, Jian Kang. Download: Github, CRAN.