| CoxAIPW {CoxAIPW} | R Documentation |
Doubly robust estimation of two-group log hazard ratio under the Cox marginal structural model, also works with informative censoring.
CoxAIPW(
data,
Tmod = "Cox",
Cmod = "Cox",
PSmod = "logit",
tau = NULL,
k = 2,
beta0 = 0,
min.S = 0.05,
min.PS = 0.1,
weights = NULL,
random_censoring = FALSE
)
data |
A matrix or dataframe object, where the first column is observed event time, second column is event indicator (1 = event, 0 = censored), third column is a binary group indicator A (numeric 0 or 1), the other columns are baseline covariates Z. |
Tmod |
working conditional model for failure time T given A,Z, currently supports values ('Cox', 'Spline', 'RSF'), corresponding to Cox PH, hazard regression, and Random survival forest. |
Cmod |
working conditional model for censoring time C given A,Z, currently supports values ('Cox', 'Spline', 'RSF'), corresponding to Cox PH, hazard regression, and Random survival forest. |
PSmod |
working model for propensity score P(A=1|Z), currently supports values ('logit','RF','twang'), corresponding to logistic regression, random forest, and the package 'twang' (gradient boosted logistic regression). |
tau |
the cutoff time of the study, which should be no less than all observed event times. Default to NULL, which sets tau to the largest observed event time. |
k |
the number of folds used in cross-fitting, default to 5. |
beta0 |
initial value for beta in the optimization algorithm, default to 0. |
min.S |
the minimum threshold for estimated survival functions P(C>t|A,Z) and P(T>t|A,Z), any estimated value below min.S is set as min.S to avoid exploding gradient. Default to 0.05 |
min.PS |
the minimum threshold for estimated propensity score, any estimated value below min.PS or above 1-min.PS is set to min.PS or 1-min.PS to avoid exploding gradient. Default to 0.1 |
weights |
a vector of length equal to the samples size that assigns weight to each observation. Also used in Bayesian Bootstrap. Default to NULL (equal weights). |
random_censoring |
a logical variable indicating whether random censoring assumption is assumed. If set to TRUE, neither IPCW nor augmentation with respect to censoring is applied. Default to FALSE. |
a list object containing 'beta', 'model_se', 'Lambda0', 'survival0' and 'survival1'. 'beta' is the estimated log hazard ratio, 'model_se' is the model-based asymptotic standard error estimator used for inference, 'Lambda0' is the estimated cumulative baseline hazard function, evaluated on each follow up time, and 'survival0' and 'survival1' are the estimated survival curves, evaluated on each follow up time, for treatment group 0 and 1 respectively.
# run Cox AIPW on the cancer data set from survival package
data(cancer, package = 'survival')
data = data.frame(
time = cancer$time,
status = cancer$status - 1,
A = cancer$sex - 1,
age = cancer$age)
aipw = CoxAIPW(data)
# extract beta and model SE.
logHR = aipw$beta
modelSE = aipw$model_se
# extract cumulative baseline hazard function.
cumbase = aipw$Lambda0
# extract survival curve for group 0 and survival curve for group 1.
surv0 = aipw$survival0
surv1 = aipw$survival1