PHInfiniteEstimates     PHInfiniteEstimates: Tools for Proportional
                        Hazards Estimation, and Inference on the
                        Associate Parameters, when Other Parameters are
                        Estimated at Infinity.
aalenjohansen           Calculate the Aalen-Johansen (1978) estimate in
                        the Competing risk context.  See Aalen, Odd O.,
                        and Søren Johansen. "An Empirical Transition
                        Matrix for Non-Homogeneous Markov Chains Based
                        on Censored Observations." Scandinavian Journal
                        of Statistics 5, no. 3 (1978): 141-50. Accessed
                        January 15, 2021.
                        http://www.jstor.org/stable/4615704.
andersenplot            Plot hazards for two strata for each time.  At
                        times with an event in one but not the other
                        group, the fitted hazard remains constant, and
                        so the plot is a step function.  If hazards are
                        proportional between strata, then the plot
                        should be close to a straight line.
arjasplot               Examine the potential role of treatment in
                        treatment in a model already including sex.
                        Straight lines that are not 45 degrees indicate
                        the appropriateness of new variable as a linear
                        effect.
bestbeta                Newton Raphson Fitter for partial likelihood
checkcensor             Check how censoring impacts sampling properties
                        of KM fit and log rank test.
checkresults            Produce a graphical assessment of Monte Carlo
                        experiment on fidelity of proportional hazards
                        regression to the uniform ideal.
compareplot             Plot resuts of simcode
compete.simulation      Simulate from a competing risk model with
                        correlated log normal errors, and plot various
                        estimates.
convertbaselineltolr    Convert a baseline logit model data set,
                        formatted in the long form as described in the
                        documentation for mlogit.data from mlogit
                        package, to a conditional logistic regression.
convertmtol             Convert a polytomous regression to a
                        conditional logistic regression.
convertstoml            Convert a proportional hazards regression to a
                        multinomial regression.
drawdiagram             Draw diagram for toy PH example.
fixcoxph                Remove observations from a proportional hazards
                        regression, and return the fit of the reduced
                        model.
gehan.wilcoxon.test     Perform Gehan's application to the Wilcoxon
                        test for multiple samples, testing for
                        equivalance of survival curve.  See Klein and
                        Moeschberger (1997) Survival Analysis (7.3.3)
                        and pp. 193-194.
heinzeschemper          Simulate operating characteristics of repaired
                        Cox regression and competitors.
inference               Perform inference on conditional sample space.
lrapproximations        Assess the accuracy of the log rank statistic
                        approximation to the true value, in the case
                        without censoring.  Provides plots of
                        statistics, and empirical test level.
network                 This function enumerates conditional sample
                        spaces associated with logistic regression,
newllk                  Proportional hazards partial likelihood, using
                        Breslow method for ties, excluding some
                        observations.
pllk                    Partial likelihood for proportional hazards
reduceLR                Reduce a logistic regression with monotone
                        likelihood to a conditional regression with
                        double descending likelihood.
simcode                 Simulate Weibull survival data from a model,
                        perform reduction to remove infinite estimates,
                        and calculate p values.
simultaneouscoverage    Calculate simultaneous coverage of pointwise
                        confidence intervals.
summarizefits           Summarize proportional hazards fits
summarizetable          Summarize the results of simulations
                        investigating operating conditions for the data
                        reduction method to avoid monotone likelihood.
                        Files are of form "hsxxx", for xxx numerals.
survregpredict          Fit survival probabilties from a survreg
                        object.
testcox                 Test size of asymptotic Cox tests.
voter.ml                Subset of British elections data used in
                        (Kolassa 2016).  Data are from (Sanders et al.
                        2007).
