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

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Documentation for package ‘Colossus’ version 1.3.0

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

Help Pages

Check_Dupe_Columns	checks for duplicated column names
Check_Trunc	Applies time duration truncation limits to create columns for Cox model
Check_Verbose	General purpose verbosity check
Convert_Model_Eq	Converts a string equation to regression model inputs
Correct_Formula_Order	Corrects the order of terms/formula/etc
CoxCurveSolver	Calculates the likelihood curve for a cox model directly
Cox_Relative_Risk	Calculates hazard ratios for a reference vector
Date_Shift	Automates creating a date difference column
Def_Control	Automatically assigns missing control values
Def_Control_Guess	Automatically assigns missing guessing control values
Def_modelform_fix	Automatically assigns geometric-mixture values and checks that a valid modelform is used
Def_model_control	Automatically assigns missing model control values
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
factorize_par	Splits a parameter into factors in parallel
Gather_Guesses_CPP	Performs checks to gather a list of guesses and iterations
gcc_version	Checks default c++ compiler
gen_time_dep	Applies time dependence to parameters
GetCensWeight	Calculates and returns data for time by hazard and survival to estimate censoring rate
get_os	Checks system OS
interact_them	Defines Interactions
Interpret_Output	Prints a regression output clearly
Joint_Multiple_Events	Automates creating data for a joint competing risks analysis
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
OMP_Check	Checks the OMP flag
PoissonCurveSolver	Calculates the likelihood curve for a poisson model directly
Rcomp_version	Checks how R was compiled
Rcpp_version	Checks default R c++ compiler
Replace_Missing	Automatically assigns missing values in listed columns
RunCaseControlRegression_Omnibus	Performs Matched Case-Control Conditional Logistic Regression
RunCoxNull	Performs basic Cox Proportional Hazards regression with the null model
RunCoxPlots	Performs Cox Proportional Hazard model plots
RunCoxRegression	Performs basic Cox Proportional Hazards regression without special options
RunCoxRegression_Basic	Performs basic Cox Proportional Hazards regression with a multiplicative log-linear model
RunCoxRegression_CR	Performs basic Cox Proportional Hazards regression with competing risks
RunCoxRegression_Guesses_CPP	Performs basic Cox Proportional Hazards regression, Generates multiple starting guesses on c++ side
RunCoxRegression_Omnibus	Performs Cox Proportional Hazards regression using the omnibus function
RunCoxRegression_Omnibus_Multidose	Performs Cox Proportional Hazards regression using the omnibus function with multiple column realizations
RunCoxRegression_Single	Performs basic Cox Proportional Hazards calculation with no derivative
RunCoxRegression_Strata	Performs basic Cox Proportional Hazards regression with strata effect
RunCoxRegression_Tier_Guesses	Performs basic cox regression, with multiple guesses, starts with solving for a single term
RunPoissonEventAssignment	Predicts how many events are due to baseline vs excess
RunPoissonEventAssignment_bound	Predicts how many events are due to baseline vs excess at the confidence bounds of a single parameter
RunPoissonRegression	Performs basic poisson regression
RunPoissonRegression_Guesses_CPP	Performs basic Poisson regression, generates multiple starting guesses on c++ side
RunPoissonRegression_Joint_Omnibus	Performs joint Poisson regression using the omnibus function
RunPoissonRegression_Omnibus	Performs basic Poisson regression using the omnibus function
RunPoissonRegression_Residual	Calculates poisson residuals
RunPoissonRegression_Single	Performs poisson regression with no derivative calculations
RunPoissonRegression_Strata	Performs poisson regression with strata effect
RunPoissonRegression_Tier_Guesses	Performs basic poisson regression, with multiple guesses, starts with a single term
System_Version	Checks OS, compilers, and OMP
Time_Since	Automates creating a date since a reference column