MBNMAtime (version 0.2.6)

ref.synth: Synthesise single arm studies with repeated observations of the same treatment over time

Description

Synthesises single arm studies with repeated measures by applying a particular time-course function. Used in predicting mean responses from a time-course MBNMA. The same parameterisation of the time course must be used as in the MBNMA.

Usage

ref.synth(
  data.ab,
  mbnma,
  synth = "random",
  link = mbnma$model.arg$link,
  n.iter = mbnma$BUGSoutput$n.iter,
  n.burnin = mbnma$BUGSoutput$n.burnin,
  n.thin = mbnma$BUGSoutput$n.thin,
  n.chains = mbnma$BUGSoutput$n.chains,
  ...
)

Value

A list of named elements corresponding to each time-course parameter within an MBNMA model that contain the median posterior value for the network reference treatment response.

Arguments

data.ab

A data frame of arm-level data in "long" format containing the columns:

• studyID Study identifiers

• time Numeric data indicating follow-up times

• y Numeric data indicating the mean response for a given observation

• se Numeric data indicating the standard error for a given observation

mbnma

An S3 object of class "mbnma" generated by running a time-course MBNMA model

synth

A character object that can take the value "common" or "random" that specifies the the type of pooling to use for synthesis of ref.resp. Using "random" rather than "common" for synth will result in wider 95\% CrI for predictions.

link

Can take either "identity" (the default), "log" (for modelling Ratios of Means friedrich2011MBNMAtime) or "smd" (for modelling Standardised Mean Differences - although this also corresponds to an identity link function).

n.iter

number of total iterations per chain (including burn in; default: 2000)

n.burnin

length of burn in, i.e. number of iterations to discard at the beginning. Default is n.iter/2, that is, discarding the first half of the simulations. If n.burnin is 0, jags() will run 100 iterations for adaption.

n.thin

thinning rate. Must be a positive integer. Set n.thin > 1 to save memory and computation time if n.iter is large. Default is max(1, floor(n.chains * (n.iter-n.burnin) / 1000)) which will only thin if there are at least 2000 simulations.

n.chains

number of Markov chains (default: 3)

...

Arguments to be sent to R2jags for synthesis of the network reference treatment effect (using ref.synth())

Details

data.ab can be a collection of studies that closely resemble the population of interest intended for the prediction, which could be different to those used to estimate the MBNMA model, and could be include single arms of RCTs or observational studies. If other data is not available, the data used to estimate the MBNMA model can be used by selecting only the studies and arms that specify the network reference treatment responses.

Examples

# \donttest{
# Create an mb.network object from a dataset
network <- mb.network(osteopain)

# Run an MBNMA model with an Emax time-course
emax <- mb.run(network,
  fun=temax(pool.emax="rel", method.emax="common",
    pool.et50="abs", method.et50="random"))

# Generate a set of studies with which to estimate the network reference treatment response
paindata.ref <- osteopain[osteopain$treatname=="Placebo_0",]

# Estimate the network reference treatment effect using common effects meta-analysis
ref.synth(data.ab=paindata.ref, mbnma=emax, synth="common")

# Estimate the network reference treatment effect using random effects meta-analysis
ref.synth(data.ab=paindata.ref, mbnma=emax, synth="random")
# }