Survival Analysis

Documentation for package ‘survival’ version 3.5-8

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A B C D E F G H I J K L M N O P Q R S T U V X Y misc

-- A --

aareg	Aalen's additive regression model for censored data
aeqSurv	Adjudicate near ties in a Surv object
aggregate.survfit	Average survival curves
agreg.fit	Cox model fitting functions
aml	Acute Myelogenous Leukemia survival data
anova.coxph	Analysis of Deviance for a Cox model.
anova.coxphlist	Analysis of Deviance for a Cox model.
anova.survreg	Regression for a Parametric Survival Model
anova.survreglist	Regression for a Parametric Survival Model
anyDuplicated.Surv	Methods for Surv objects
as.character.Surv	Methods for Surv objects
as.data.frame.Surv	Methods for Surv objects
as.integer.Surv	Methods for Surv objects
as.matrix.Surv	Methods for Surv objects
as.numeric.Surv	Methods for Surv objects
attrassign	Create new-style "assign" attribute
attrassign.default	Create new-style "assign" attribute
attrassign.lm	Create new-style "assign" attribute

-- B --

basehaz	Alias for the survfit function
bcloglog	Bounded link functions
bladder	Bladder Cancer Recurrences
bladder1	Bladder Cancer Recurrences
bladder2	Bladder Cancer Recurrences
blog	Bounded link functions
blogit	Bounded link functions
bprobit	Bounded link functions
brier	Compute the Brier score for a Cox model

-- C --

c.Surv	Methods for Surv objects
cancer	NCCTG Lung Cancer Data
capacitor	Reliability data sets
cch	Fits proportional hazards regression model to case-cohort data
cgd	Chronic Granulotamous Disease data
cgd.raw	Chronic Granulotamous Disease data
cgd0	Chronic Granulotomous Disease data
cipoisson	Confidence limits for the Poisson
clogit	Conditional logistic regression
cluster	Identify clusters.
colon	Chemotherapy for Stage B/C colon cancer
concordance	Compute the concordance statistic for data or a model
concordance.coxph	Compute the concordance statistic for data or a model
concordance.formula	Compute the concordance statistic for data or a model
concordance.lm	Compute the concordance statistic for data or a model
concordance.survreg	Compute the concordance statistic for data or a model
concordancefit	Compute the concordance
cox.zph	Test the Proportional Hazards Assumption of a Cox Regression
coxph	Fit Proportional Hazards Regression Model
coxph.control	Ancillary arguments for controlling coxph fits
coxph.detail	Details of a Cox Model Fit
coxph.fit	Cox model fitting functions
coxph.getdata	Fit Proportional Hazards Regression Model
coxph.object	Proportional Hazards Regression Object
coxph.penalty	Fit Proportional Hazards Regression Model
coxph.wtest	Compute a quadratic form
coxphms.object	Multi-state Proportional Hazards Regression Object
coxsurv.fit	A direct interface to the 'computational engine' of survfit.coxph
cracks	Reliability data sets

-- D --

diabetic	Ddiabetic retinopathy
dsurvreg	Distributions available in survreg.
duplicated.Surv	Methods for Surv objects

-- E --

extractAIC.coxph.penal

Proportional Hazards Regression Object

-- F --

finegray	Create data for a Fine-Gray model
flchain	Assay of serum free light chain for 7874 subjects.
format.Surv	Methods for Surv objects
frailty	Random effects terms
frailty.gamma	Random effects terms
frailty.gaussian	Random effects terms
frailty.t	Random effects terms

-- G --

gbsg	Breast cancer data sets used in Royston and Altman (2013)
genfan	Reliability data sets

-- H --

head.Surv	Methods for Surv objects
heart	Stanford Heart Transplant data
hoel	Mouse cancer data

-- I --

ifluid	Reliability data sets
imotor	Reliability data sets
is.na.Surv	Methods for Surv objects
is.ratetable	Verify that an object is of class ratetable.
is.Surv	Create a Survival Object

-- J --

jasa	Stanford Heart Transplant data
jasa1	Stanford Heart Transplant data

-- K --

kidney

Kidney catheter data

-- L --

labels.survreg	Regression for a Parametric Survival Model
length.Surv	Methods for Surv objects
leukemia	Acute Myelogenous Leukemia survival data
levels.Surv	Return the states of a multi-state Surv object
levels.tcut	Factors for person-year calculations
lines.survexp	Add Lines or Points to a Survival Plot
lines.survfit	Add Lines or Points to a Survival Plot
logan	Data from the 1972-78 GSS data used by Logan
logLik.coxph	logLik method for a Cox model
logLik.survreg	logLik method for a Cox model
lung	NCCTG Lung Cancer Data

-- M --

Math.ratetable	Verify that an object is of class ratetable.
Math.Surv	Methods for Surv objects
mean.Surv	Methods for Surv objects
median.Surv	Methods for Surv objects
median.survfit	Quantiles from a survfit object
mgus	Monoclonal gammopathy data
mgus1	Monoclonal gammopathy data
mgus2	Monoclonal gammopathy data
model.frame.coxph	Model.frame method for coxph objects
model.frame.survreg	Regression for a Parametric Survival Model
model.matrix.coxph	Model.matrix method for coxph models
myeloid	Acute myeloid leukemia
myeloma	Survival times of patients with multiple myeloma

-- N --

nafld1	Non-alcohol fatty liver disease
nafld2	Non-alcohol fatty liver disease
nafld3	Non-alcohol fatty liver disease
names.Surv	Methods for Surv objects
names<-.Surv	Methods for Surv objects
neardate	Find the index of the closest value in data set 2, for each entry in data set one.
nsk	Natural splines with knot heights as the basis.
nwtco	Data from the National Wilm's Tumor Study

-- O --

Ops.ratetable	Verify that an object is of class ratetable.
Ops.Surv	Methods for Surv objects
order.Surv	Sorting order for Surv objects
ovarian	Ovarian Cancer Survival Data

-- P --

pbc	Mayo Clinic Primary Biliary Cholangitis Data
pbcseq	Mayo Clinic Primary Biliary Cirrhosis, sequential data
plot.aareg	Plot an aareg object.
plot.cox.zph	Graphical Test of Proportional Hazards
plot.Surv	Methods for Surv objects
plot.survfit	Plot method for 'survfit' objects
points.survfit	Add Lines or Points to a Survival Plot
predict.coxph	Predictions for a Cox model
predict.coxph.penal	Predictions for a Cox model
predict.survreg	Predicted Values for a 'survreg' Object
predict.survreg.penal	Predicted Values for a 'survreg' Object
print.aareg	Print an aareg object
print.cox.zph	Test the Proportional Hazards Assumption of a Cox Regression
print.coxph	Proportional Hazards Regression Object
print.coxph.null	Fit Proportional Hazards Regression Model
print.coxph.penal	Fit Proportional Hazards Regression Model
print.summary.coxph	Print method for summary.coxph objects
print.summary.survexp	Print Survexp Summary
print.summary.survfit	Print Survfit Summary
print.summary.survreg	Regression for a Parametric Survival Model
print.survdiff	Test Survival Curve Differences
print.survexp	Compute Expected Survival
print.survfit	Print a Short Summary of a Survival Curve
print.survreg	Parametric Survival Model Object
print.survreg.penal	Regression for a Parametric Survival Model
pseudo	Pseudo values for survival.
pspline	Smoothing splines using a pspline basis
psplineinverse	Smoothing splines using a pspline basis
psurvreg	Distributions available in survreg.
pyears	Person Years

-- Q --

qsurvreg	Distributions available in survreg.
quantile.Surv	Methods for Surv objects
quantile.survfit	Quantiles from a survfit object
quantile.survfitms	Quantiles from a survfit object

-- R --

ratetable	Allow ratetable() terms in a model
ratetableDate	Convert date objects to ratetable form
rats	Rat treatment data from Mantel et al
rats2	Rat data from Gail et al.
reliability	Reliability data sets
rep.int.Surv	Methods for Surv objects
rep.Surv	Methods for Surv objects
rep_len.Surv	Methods for Surv objects
residuals.coxph	Calculate Residuals for a 'coxph' Fit
residuals.coxph.null	Calculate Residuals for a 'coxph' Fit
residuals.coxph.penal	Calculate Residuals for a 'coxph' Fit
residuals.coxphms	Calculate Residuals for a 'coxph' Fit
residuals.survfit	IJ residuals from a survfit object.
residuals.survreg	Compute Residuals for 'survreg' Objects
residuals.survreg.penal	Compute Residuals for 'survreg' Objects
retinopathy	Diabetic Retinopathy
rev.Surv	Methods for Surv objects
rhDNase	rhDNASE data set
ridge	Ridge regression
rotterdam	Breast cancer data set used in Royston and Altman (2013)
royston	Compute Royston's D for a Cox model
rsurvreg	Distributions available in survreg.
rttright	Compute redistribute-to-the-right weights

-- S --

solder	Data from a soldering experiment
sort.Surv	Sorting order for Surv objects
stanford2	More Stanford Heart Transplant data
statefig	Draw a state space figure.
strata	Identify Stratification Variables
summary.aareg	Summarize an aareg fit
summary.coxph	Summary method for Cox models
summary.coxph.penal	Fit Proportional Hazards Regression Model
summary.pyears	Summary function for pyears objecs
Summary.Surv	Methods for Surv objects
summary.survexp	Summary function for a survexp object
summary.survfit	Summary of a Survival Curve
summary.survreg	Parametric Survival Model Object
Surv	Create a Survival Object
Surv2	Create a survival object
Surv2data	Convert data from timecourse to (time1,time2) style
survcheck	Checks of a survival data set
survConcordance	Deprecated functions in package 'survival'
survConcordance.fit	Deprecated functions in package 'survival'
survcondense	Shorten a (time1, time2) survival dataset
survdiff	Test Survival Curve Differences
survexp	Compute Expected Survival
survexp.fit	Compute Expected Survival
survexp.mn	Census Data Sets for the Expected Survival and Person Years Functions
survexp.object	Expected Survival Curve Object
survexp.us	Census Data Sets for the Expected Survival and Person Years Functions
survexp.usr	Census Data Sets for the Expected Survival and Person Years Functions
survfit	Create survival curves
survfit.coxph	Compute a Survival Curve from a Cox model
survfit.coxphms	Compute a Survival Curve from a Cox model
survfit.formula	Compute a Survival Curve for Censored Data
survfit.matrix	Create Aalen-Johansen estimates of multi-state survival from a matrix of hazards.
survfit.object	Survival Curve Object
survfit0	Convert the format of a survfit object.
survfitcoxph.fit	A direct interface to the 'computational engine' of survfit.coxph
survfitms.object	Survival Curve Object
survival-deprecated	Deprecated functions in package 'survival'
survobrien	O'Brien's Test for Association of a Single Variable with Survival
survReg	Regression for a Parametric Survival Model
survreg	Regression for a Parametric Survival Model
survreg.control	Package options for survreg and coxph
survreg.distributions	Parametric Survival Distributions
survreg.object	Parametric Survival Model Object
survregDtest	Verify a survreg distribution
survSplit	Split a survival data set at specified times

-- T --

t.Surv	Methods for Surv objects
tail.Surv	Methods for Surv objects
tcut	Factors for person-year calculations
tmerge	Time based merge for survival data
tobin	Tobin's Tobit data
transplant	Liver transplant waiting list
turbine	Reliability data sets

-- U --

udca	Data from a trial of usrodeoxycholic acid
udca1	Data from a trial of usrodeoxycholic acid
udca2	Data from a trial of usrodeoxycholic acid
unique.Surv	Methods for Surv objects
untangle.specials	Help Process the 'specials' Argument of the 'terms' Function.
uspop2	Projected US Population

-- V --

valveSeat	Reliability data sets
vcov.coxph	Variance-covariance matrix
vcov.survreg	Variance-covariance matrix
veteran	Veterans' Administration Lung Cancer study

-- X --

xtfrm.Surv

Sorting order for Surv objects

-- Y --

yates	Population prediction
yates_setup	Method for adding new models to the 'yates' function.

-- misc --

[.cox.zph	Test the Proportional Hazards Assumption of a Cox Regression
[.Surv	Create a Survival Object
[.survfit	Compute a Survival Curve for Censored Data
[.tcut	Factors for person-year calculations