plot.BIPOD: Plot function for class BIPOD

Description Usage Arguments Details

View source: R/plot.BIPOD.r

Description

Graphical summaries of output from Gibbs sampler

Usage

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## S3 method for class 'BIPOD'
plot(x, theta = NULL, subset = NULL, type, lag = 20,
       interval = NULL, treshold = 0.1, speed = 0.1, truepath = NULL,
       BY = 1, prop = c(.05,.95), diffPriorMean = NULL,
       diffPriorCovar = NULL, log = FALSE, ...)

Arguments

x

x: An object of class BIPOD.

theta

Optional numerical vector with true parameter values.

subset

Numeric vector. Which parameters should be used for plotting. Defaults to all.

type

Character choosing plotting type: Either "trace", "hist", "acp", "pairs","SDtrace", "accept", "movie" or "cover". See details.

lag

Positive integer: Number of lags used in autocorrelation plot

interval

Positive integer or numericla vector: If integer, used as burn in for the Gibbs sampler. If vector, used to subsample Gibbs output. Defaults to no subsampling and no burn in.

treshold

Positive numeric: Cut off for acceptance rate.

speed

Positive number used for type="movie": How much time to pause between each frame of the movie?

truepath

Vector or matrix with latent data. Optional.

BY

integer: Only relevant for type="movie". How many frames to skip for each iteration?

prop

Numeric vector with values between 0 and 1: Only relevant for type="cover". Specifies quantiles for the sampled paths

diffPriorMean

Numeric of length 2, only for type=="hist". The prior mean for the diffusion coefficients.

diffPriorCovar

2*2 matrix, only for type=="hist". The prior covariance for the diffusion coefficients.

log

Boolean, only for type=="hist". If TRUE, the prior density and the estimate of the diffusion coefficients are log transformed before plotting.

...

Additional arguments to be passed to matplot, density or acf.

Details

Different 'type'-argument gives different plots. More details to come...


BIPOD documentation built on May 29, 2017, 10:07 a.m.