BCEA (version 2.4.6)

bcea: Create Bayesian Cost-Effectiveness Analysis Object

Description

Cost-effectiveness analysis based on the results of a simulation model for a variable of clinical benefits (e) and of costs (c). Produces results to be post-processed to give the health economic analysis. The output is stored in an object of the class "bcea".

Usage

bcea(
  eff,
  cost,
  ref = 1,
  interventions = NULL,
  .comparison = NULL,
  Kmax = 50000,
  k = NULL,
  plot = FALSE,
  ...
)
# S3 method for default
bcea(
  eff,
  cost,
  ref = NULL,
  interventions = NULL,
  .comparison = NULL,
  Kmax = 50000,
  k = NULL,
  plot = FALSE,
  ...
)
# S3 method for rjags
bcea(eff, ...)
# S3 method for rstan
bcea(eff, ...)
# S3 method for bugs
bcea(eff, ...)

Value

An object of the class "bcea" containing the following elements

n_sim

Number of simulations produced by the Bayesian model

n_comparators

Number of interventions being analysed

n_comparisons

Number of possible pairwise comparisons

delta.e

For each possible comparison, the differential in the effectiveness measure

delta.c

For each possible comparison, the differential in the cost measure

ICER

The value of the Incremental Cost-Effectiveness Ratio

Kmax

The maximum value assumed for the willingness to pay threshold

k

The vector of values for the grid approximation of the willingness to pay

ceac

The value for the Cost-Effectiveness Acceptability Curve, as a function of the willingness to pay

ib

The distribution of the Incremental Benefit, for a given willingness to pay

eib

The value for the Expected Incremental Benefit, as a function of the willingness to pay

kstar

The grid approximation of the break-even point(s)

best

A vector containing the numeric label of the intervention that is the most cost-effective for each value of the willingness to pay in the selected grid approximation

U

An array including the value of the expected utility for each simulation from the Bayesian model, for each value of the grid approximation of the willingness to pay and for each intervention being considered

vi

An array including the value of information for each simulation from the Bayesian model and for each value of the grid approximation of the willingness to pay

Ustar

An array including the maximum "known-distribution" utility for each simulation from the Bayesian model and for each value of the grid approximation of the willingness to pay

ol

An array including the opportunity loss for each simulation from the Bayesian model and for each value of the grid approximation of the willingness to pay

evi

The vector of values for the Expected Value of Information, as a function of the willingness to pay

interventions

A vector of labels for all the interventions considered

ref

The numeric index associated with the intervention used as reference in the analysis

comp

The numeric index(es) associated with the intervention(s) used as comparator(s) in the analysis

step

The step size used to form the grid approximation to the willingness to pay

e

The eff matrix used to generate the object (see Arguments)

c

The cost matrix used to generate the object (see Arguments)

Arguments

eff

An object containing nsim simulations for the variable of clinical effectiveness for each intervention being considered. In general it is a matrix with nsim rows and nint columns. This are partially matched with e' from previous version of BCEA` for back-compatibility.

cost

An object containing nsim simulations for the variable of cost for each intervention being considered. In general it is a matrix with nsim rows and nint columns. This are partially matched with c' from previous version of BCEA` for back-compatibility.

ref

Defines which intervention (columns of eff or cost) is considered to be the reference strategy. The default value ref = 1 means that the intervention associated with the first column of eff or cost is the reference and the one(s) associated with the other column(s) is(are) the comparators.

interventions

Defines the labels to be associated with each intervention. By default and if NULL, assigns labels in the form "Intervention1", ... , "InterventionT".

.comparison

Selects the comparator, in case of more than two interventions being analysed. Default as NULL plots all the comparisons together. Any subset of the possible comparisons can be selected (e.g., comparison=c(1,3) or comparison = 2).

Kmax

Maximum value of the willingness to pay to be considered. Default value is k = 50000. The willingness to pay is then approximated on a discrete grid in the interval [0, Kmax]. The grid is equal to k if the parameter is given, or composed of 501 elements if k = NULL (the default).

k

A(n optional) vector for the values of the willingness to pay grid. Should be of length > 1 otherwise plots will be empty. If not specified then BCEA will construct a grid of 501 values from 0 to Kmax. This option is useful when performing intensive computations (e.g. for the EVPPI). This was changed from wtp in previous versions for consistency with other functions and so will be deprecated in the future.

plot

A logical value indicating whether the function should produce the summary plot or not.

...

Additional arguments

Author

Gianluca Baio, Andrea Berardi, Nathan Green

References

Baio2013BCEA

Baio2011BCEA

Examples

# See Baio (2013), Baio (2011) for a detailed description of the 
# Bayesian model and economic problem

# Load the processed results of the MCMC simulation model
data(Vaccine)

# Runs the health economic evaluation using BCEA
m <- bcea(
      e=eff,
      c=cost,               # defines the variables of 
                            #  effectiveness and cost
      ref=2,                # selects the 2nd row of (e, c) 
                            #  as containing the reference intervention
      interventions=treats, # defines the labels to be associated 
                            #  with each intervention
      Kmax=50000,           # maximum value possible for the willingness 
                            #  to pay threshold; implies that k is chosen 
                            #  in a grid from the interval (0, Kmax)
      plot=TRUE             # plots the results
)

# Creates a summary table
summary(
      m,         # uses the results of the economic evaluation 
                 #  (a "bcea" object)
      wtp=25000	# selects the particular value for k 
)

# \donttest{

# Plots the cost-effectiveness plane using base graphics
ceplane.plot(
      m,             # plots the Cost-Effectiveness plane
      comparison=1,  # if more than 2 interventions, selects the
                     #  pairwise comparison 
      wtp=25000,     # selects the relevant willingness to pay 
                     #  (default: 25,000) 
      graph="base"   # selects base graphics (default)
)

# Plots the cost-effectiveness plane using ggplot2
if (requireNamespace("ggplot2")) {
ceplane.plot(
      m,             # plots the Cost-Effectiveness plane
      comparison=1,  # if more than 2 interventions, selects the
                     #  pairwise comparison 
      wtp=25000,     # selects the relevant willingness to pay 
                     #  (default: 25,000) 
      graph="ggplot2"# selects ggplot2 as the graphical engine
)

# Some more options
ceplane.plot(
      m,
      graph="ggplot2",
      pos="top",
      size=5,
      ICER_size=1.5,
      label.pos=FALSE,
      opt.theme=ggplot2::theme(text=ggplot2::element_text(size=8))
)
}

# Plots the contour and scatterplot of the bivariate 
# distribution of (Delta_e,Delta_c)
contour(
      m,            # uses the results of the economic evaluation 
                    #  (a "bcea" object)
      comparison=1, # if more than 2 interventions, selects the 
                    #  pairwise comparison 
      nlevels=4,    # selects the number of levels to be 
                    #  plotted (default=4)
      levels=NULL,  # specifies the actual levels to be plotted 
                    #  (default=NULL, so that R will decide)
      scale=0.5,    # scales the bandwidths for both x- and 
                    #  y-axis (default=0.5)
      graph="base"  # uses base graphics to produce the plot
)

# Plots the contour and scatterplot of the bivariate 
#   distribution of (Delta_e,Delta_c)
contour2(
      m,          # uses the results of the economic evaluation 
                  #  (a "bcea" object)
      wtp=25000,  # selects the willingness-to-pay threshold
)

# Using ggplot2
if (requireNamespace("ggplot2")) {
contour2(
      m,              # uses the results of the economic evaluation 
                      #  (a "bcea" object)
      graph="ggplot2",# selects the graphical engine
      wtp=25000,      # selects the willingness-to-pay threshold
      label.pos=FALSE # alternative position for the wtp label
)
}

# Plots the Expected Incremental Benefit for the "bcea" object m
eib.plot(m)

# Plots the distribution of the Incremental Benefit
ib.plot(
    m,            # uses the results of the economic evaluation 
                  #  (a "bcea" object)
    comparison=1, # if more than 2 interventions, selects the 
                  #  pairwise comparison 
    wtp=25000,    # selects the relevant willingness 
                  #  to pay (default: 25,000)
    graph="base"  # uses base graphics
)

# Produces a plot of the CEAC against a grid of values for the 
# willingness to pay threshold
ceac.plot(m)

# Plots the Expected Value of Information for the "bcea" object m
evi.plot(m)
# }