"Risk Model Regression and Analysis with Complex Non-Linear Models"

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Documentation for package ‘Colossus’ version 1.6.2

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

CaseControlRun	Fully runs a case-control regression model, returning the model and results
CoxRun	Fully runs a cox or fine-gray regression model, returning the model and results
CoxRunMulti	Fully runs a cox or fine-gray regression model with multiple column realizations, returning the model and results
Date_Shift	Automates creating a date difference column
EventAssignment	Generic background/excess event calculation function
EventAssignment.poisres	Predicts how many events are due to baseline vs excess for a completed poisson model
EventAssignment.poisresbound	Predicts how many events are due to baseline vs excess for a completed poisson likelihood boundary regression
Event_Count_Gen	uses a table, list of categories, and list of event summaries to generate person-count tables
Event_Time_Gen	uses a table, list of categories, list of summaries, list of events, and person-year information to generate person-time tables
factorize	Splits a parameter into factors
gen_time_dep	Applies time dependence to parameters
get_form	Interprets a Colossus formula and makes necessary changes to data
get_form_joint	Interprets a Poisson joint formula and makes necessary changes to data
Joint_Multiple_Events	Automates creating data for a joint competing risks analysis
LikelihoodBound	Generic likelihood boundary calculation function
LikelihoodBound.coxres	Calculates the likelihood boundary for a completed cox model
LikelihoodBound.logitres	Calculates the likelihood boundary for a completed Logistic model
LikelihoodBound.poisres	Calculates the likelihood boundary for a completed Poisson model
Likelihood_Ratio_Test	Defines the likelihood ratio test
Linked_Dose_Formula	Calculates Full Parameter list for Special Dose Formula
Linked_Lin_Exp_Para	Calculates The Additional Parameter For a linear-exponential formula with known maximum
LogisticRun	Fully runs a logistic regression model, returning the model and results
LogisticRunMulti	Fully runs a logistic regression model with multiple column realizations, returning the model and results
LogisticRunMultiOut	Fully runs a logistic regression model with multiple event realizations, returning the model and results
OMP_Check	Checks the OMP flag
plot.coxres	Performs Cox Proportional Hazard model plots
plotMartingale	Generic Martingale Residual Plotting function
plotMartingale.coxres	Performs Cox Proportional Hazard model martingale residual plots
plotRisk	Generic Risk Plotting function
plotRisk.coxres	Performs Cox Proportional Hazard model hazard ratio plots
plotSchoenfeld	Generic Schoenfeld Residual Plotting function
plotSchoenfeld.coxres	Performs Cox Proportional Hazard model schoenfeld residual plots
plotSurvival	Generic Survival Plotting function
plotSurvival.coxres	Performs Cox Proportional Hazard model survival plots
PoisRun	Fully runs a poisson regression model, returning the model and results
PoisRunJoint	Fully runs a joint poisson regression model, returning the model and results
PoisRunMulti	Fully runs a poisson regression model with multiple column realizations, returning the model and results
PoisRunMultiOut	Fully runs a poisson regression model with multiple event realizations, returning the model and results
RelativeRisk	Generic relative risk calculation function
RelativeRisk.coxmodel	Calculates hazard ratios for a reference vector and model
RelativeRisk.coxres	Calculates hazard ratios for a reference vector
RelativeRisk.formula	Calculates hazard ratios for a reference vector and model
Replace_Missing	Automatically assigns missing values in listed columns
Residual	Generic Residual calculation function
Residual.logitmodel	Calculates the Residuals for a logistic model
Residual.logitres	Calculates the Residuals for a completed logistic model
Residual.poismodel	Calculates the Residuals for a poisson formula
Residual.poisres	Calculates the Residuals for a completed poisson model
System_Version	Checks OS, compilers, and OMP
Time_Since	Automates creating a date since a reference column