defaultOptions {EDISON} | R Documentation |
Set the default options for the MCMC simulation.
Description
This function creates a list with the default options of the MCMC simulation.
Usage
defaultOptions()
Value
A list of default options with elements:
lmax |
Maximum number of parent nodes. Default=5. |
m |
Number of repeated measurements. Default=1 (no repeats). |
dyn |
Lag for the DBN model. Default = 1 when X(t) depends on the previous measurement X(t-1), but dyn can be chosen equal to 2, 3, ... |
minPhase |
Minimal length of a segment. Default=2. |
maxCP |
Maximal number of changepoints. Default=10. |
maxTF |
Maximal number of incoming edges for each node. Default=5. |
alphaCP |
Hyperparameter for the number of changepoints. Default=1. |
betaCP |
Hyperparameter for the number of changepoints. Default=0.5. |
alphaTF |
Hyperparameter for the number of incoming edges. Default=1. |
betaTF |
Hyperparameter for the number of incoming edges. Default=0.5. |
burnin |
Whether to include a burnin period. Default=F. |
psrf.check |
Whether to calculate the potential scale reduction factor (PSRF). Default=F. |
pp.l1 |
Proposal frequency for level-1 hyperparameter moves. Default=0.2. |
pp.l2 |
Proposal frequency for level-2 hyperparameter moves. Default=0.01. |
save.by.node |
Whether to save results separately for each target node. Default=F. |
save.file |
Whether to save the results to a file. Default=F. |
hyper.fixed |
Whether to keep the network structure prior hyperparameters fixed. Default=F. |
cp.fixed |
Whether to keep the changepoints fixed. Default=F. |
hyper.init |
Initial values for the network structure prior hyperparameters. Default=NULL. |
cp.init |
Initial values for the changepoint locations. Default=NULL. |
Author(s)
Frank Dondelinger
Examples
# Set options to allow saving network and changepoint samples to file
options = defaultOptions()
options$save.file = TRUE
# NOT EXECUTED
# result.bino2 = EDISON.run(dataset$sim_data,
# information.sharing='bino_hard',
# num.iter=5000, output.file='bino2.results',
# options=options)