Run Time-Course MBNMA Models


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Documentation for package ‘MBNMAtime’ version 0.1.3

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add_index Add follow-up time and arm indices to a dataset
alog_pcfb Studies of alogliptin for lowering blood glucose concentration in patients with type II diabetes
compound.beta Prepares beta time-course parameters for mb.write()
devplot Plot deviance contributions from an MBNMA model
fitplot Plot fitted values from MBNMA model
gen.parameters.to.save Automatically generate parameters to save for a dose-response MBNMA model
genmaxcols Get large vector of distinct colours using Rcolorbrewer
get.earliest.time Create a dataset with the earliest time point only
get.latest.time Create a dataset with the latest time point only
get.model.vals Get MBNMA model values
get.prior Get current priors from JAGS model code
getjagsdata Prepares data for JAGS
goutSUA_CFB Studies of treatments for reducing serum uric acid in patients with gout
goutSUA_CFBcomb Studies of combined treatments for reducing serum uric acid in patients with gout
inconsistency.loops Identify comparisons in loops that fulfill criteria for node-splitting
mb.comparisons Identify unique comparisons within a network (identical to MBNMAdose)
mb.emax Run MBNMA model with an Emax time-course function (without a Hill parameter)
mb.emax.hill Run MBNMA model with an Emax time-course function and a Hill parameter
mb.exponential Run MBNMA model with an exponential time-course function
mb.fract.first Run MBNMA model with a first-order fractional polynomial time-course function
mb.fract.second Run MBNMA model with a second-order fractional polynomial time-course function
mb.linear Run MBNMA model with a linear time-course function
mb.make.contrast Convert arm-based MBNMA data to contrast data
mb.network Create an mb.network object
mb.nodesplit Perform node-splitting on a MBNMA time-course network
mb.nodesplit.comparisons Identify comparisons in time-course MBNMA datasets that fulfill criteria for node-splitting
mb.piecelinear Run MBNMA model with a piecewise linear time-course function
mb.quadratic Run MBNMA model with a quadratic time-course function
mb.run Run MBNMA time-course models
mb.update Update MBNMA to obtain deviance contributions or fitted values
mb.validate.data Validates that a dataset fulfills requirements for MBNMA
mb.write Write MBNMA time-course models JAGS code
obesityBW_CFB Studies of treatments for reducing body weight in patients with obesity
osteopain Studies of pain relief medications for osteoarthritis
pDcalc Calculate plugin pD from a JAGS model with univariate likelihood for studies with repeated measurements
plot.mb.network Create an mb.network object
plot.mb.nodesplit Perform node-splitting on a MBNMA time-course network
plot.mb.predict Plots predicted responses from a time-course MBNMA model
plot.mb.rank Plot histograms of rankings from MBNMA models
plot.mbnma Forest plot for results from time-course MBNMA models
predict.mbnma Predict responses over time in a given population based on MBNMA time-course models
print.mb.network Print mb.network information to the console
print.mb.nodesplit Prints basic results from a node-split to the console
print.mb.predict Print summary information from an mb.predict object
print.mb.rank Prints a summary of rankings for each parameter
radian.rescale Calculate position of label with respect to vertex location within a circle
rank Set rank as a method
rank.mbnma Rank parameters from a time-course MBNMA
rankauc Calculates ranking probabilities for AUC from a time-course MBNMA
ref.comparisons Identify unique comparisons relative to study reference treatment within a network
ref.synth Synthesise single arm studies with repeated observations of the same treatment over time
ref.validate Checks the validity of ref.resp if given as data frame
replace.prior Replace original priors in an MBNMA model with new priors
summary.mb.nodesplit Takes node-split results and produces summary data frame
summary.mb.predict Prints summary of mb.predict object
summary.mbnma Print summary MBNMA results to the console
time.fun Write time-course function component of JAGS code for MBNMA time-course models
timeplot Plot raw responses over time by treatment or class
write.alpha Adds sections of JAGS code for an MBNMA model that correspond to alpha parameters
write.beta Adds sections of JAGS code for an MBNMA model that correspond to beta parameters
write.check Checks validity of arguments for mb.write
write.cor Adds correlation between time-course relative effects
write.fract.poly Adds additional sections of JAGS code for an MBNMA model required for models with a fractional polynomial time-course
write.inserts Writes insert points for RegEx in MBNMA JAGS code
write.likelihood Adds sections of JAGS code for an MBNMA model that correspond to the likelihood
write.model Write the basic JAGS model code for MBNMA to which other lines of model code can be added
write.piece.fract Adds additional sections of JAGS code for an MBNMA model required for models with a piecewise linear or fractional polynomial time-course
write.piecelinear Adds additional sections of JAGS code for an MBNMA model required for models with a piecewise linear time-course
write.ref.synth Write MBNMA time-course models JAGS code for synthesis of studies investigating reference treatment
write.remove.loops Removes any loops from MBNMA model JAGS code that do not contain any expressions