X_mat_returner          Function to output X matrices used in
                        calculation of MLE's for linear outcome with
                        logistic environment interaction
X_mat_returner_lle      Function to output X matrices used in
                        calculation of MLE's for linear outcome with
                        linear environment interaction
add.fun.t               Function to Calculate t matrix for logistic
                        outcome with binary environment interaction in
                        additive model
add.or.function         Additive Model Function
additive.ll             Function to Calculate Additive Log Likelihood
                        for a Logistic Regression Model
additive.ll.linear      Function to Calculate Additive Log Likelihood
                        for a Linear Regression Model
as.numeric2             Function to convert to numeric with scientific
                        notation containing the "." character
calc.like               Function to Calculate Log Likelihood for a
                        Logistic Regression Model
calc.like.linear        Function to Calculate Log Likelihood for a
                        Linear Regression Model
calc.like.linear.log.envir.interaction
                        Function to calculate the standard deviation of
                        y given x for linear models with logistic
                        environment interaction
df2.ll                  Function to Calculate 2df Log Likelihood for a
                        Logistic Regression Model
df2.ll.linear           Function to Calculate 2 Degree of Freedom Log
                        Likelihood for a Linear Regression Model
dom.fun.t               Function to Calculate t matrix for logistic
                        outcome with binary environment interaction in
                        dominant model
dom.or.function         Dominant Model Function
dominant.ll             Function to Calculate Dominant Log Likelihood
                        for a Logistic Regression Model
dominant.ll.linear      Function to Calculate Dominant Log Likelihood
                        for a Linear Regression Model
es.calc.linear          Function to Calculate Effect Size for Linear
                        Models
expected.linear.ll      Function to Calculate Expected Log Likelihood
                        for a Single Genotype
expected.linear.ll.lin.env
                        Function to Calculate Expected Log Likelihood
                        for a Single Genotype with linear environment
                        interaction
find.prob.dom           Dominant probability finding function
find.prob.rec           Recessive probability finding function
genpwr.calc             Function to Calculate Power for Linear Models
                        with logistic environment interaction
integrand_funct_case    Function to generate integrand for mle for
                        cases
integrand_funct_control
                        Function to generate integrand for mle for
                        controls
linear.mles             Function to calculate MLE's for linear models
linear.mles.lin.envir.interaction
                        Function to calculate the standard deviation of
                        y given x for linear models with linear
                        environment interaction
linear.mles.lin.envir.interaction_reduced
                        Function to calculate the standard deviation of
                        y given x for linear models with linear
                        environment interaction for the reduced model
                        without GxE interaction
linear.mles.log.envir.interaction
                        Function to calculate the standard deviation of
                        y given x for linear models with logistic
                        environment interaction
linear.outcome.lin.envir.interaction.sds
                        Function to calculate the standard deviation of
                        y given x for linear models with linear
                        environment interaction
linear.outcome.lin.envir.interaction.sds_reduced
                        Function to calculate the standard deviation of
                        y given x for linear models with linear
                        environment interaction
linear.outcome.log.envir.interaction.sds
                        Function to calculate the standard deviation of
                        y given x for linear models with logistic
                        environment interaction
linear.sds              Functions to Calculate Residual SD for
                        Normal/Continuous Outcomes Function to
                        calculate the standard deviation of y given x
                        for linear models
ll.ge.logistic          Function to calculate MLE's for logistic models
                        with logistic environment interaction
ll.ge.logistic.lin.envir
                        Function to output log likelihood for logistic
                        outcome with linear environment variables
ll.linear.selector      Function to return log likelihood function for
                        specified model type
ll_zero_finder2         Zero finding function
logistic.mles           Function to calculate MLE's for logistic models
logit                   Logit Function
ncp.search              Function to Determine Non-Centrality Parameter
                        of the Chi-squared distribution
null.ll                 Function to Calculate Null Log Likelihood for a
                        Logistic Regression Model
null.ll.linear          Function to Calculate Expected Null Log
                        Likelihood for a Linear Regression Model
odds_ratio_function     Odds Ratio Function
or.function.2df         2df Model Function
or.plot                 Function to Plot Odds Ratio Results
or_calc                 Odds ratio calculation
p_vec_returner          Function to output probability vector used in
                        calculation of MLE's for linear outcome with
                        logistic environment interaction
p_vec_returner_lin_env
                        Function to output probability vector used in
                        calculation of MLE's for linear outcome with
                        linear environment interaction
power.calc              Function to Calculate Power
power.calc.linear       Function to Calculate Power for Linear Models
power.plot              Function to Plot Power Results
power_envir.calc        Function to Calculate Power for Logistic Models
                        with Environment Interaction
power_envir.calc.linear_outcome
                        Function to Calculate Power for Linear Models
                        with logistic environment interaction
power_linear_envir.calc.linear_outcome
                        Function to Calculate Power for Linear Models
                        with linear environment interaction
power_linear_envir.calc.logistic_outcome
                        Function to Calculate Power for Linear Models
                        with logistic environment interaction
quad_roots              Function to Solve Quadratic Equations
rec.fun.t               Function to Calculate t matrix for logistic
                        outcome with binary environment interaction in
                        recessive model
rec.or.function         Recessive Model Function
recessive.ll            Function to Calculate Recessive Log Likelihood
                        for a Logistic Regression Model
recessive.ll.linear     Function to Calculate Recessive Log Likelihood
                        for a Linear Regression Model
solve_a                 Binomial coefficient calculation
ss.calc                 Function to Calculate Sample Size
ss.calc.linear          Function to Calculate Sample Size in Linear
                        Models
ss.plot                 Function to Plot Sample Size Results
ss_envir.calc           Function to Calculate Power for Logistic Models
                        with Environment Interaction
ss_envir.calc.linear_outcome
                        Function to Calculate Power for Linear Models
                        with logistic environment interaction
ss_linear_envir.calc.linear_outcome
                        Function to Calculate Power for Linear Models
                        with linear environment interaction
ss_linear_envir.calc.logistic_outcome
                        Function to Calculate Sample Size for Linear
                        Models with logistic environment interaction
zero_finder_nleqslv     Zero finder
