mcmc_trace_plot: Traceplot of the Gibbs sampling iterations

In iFad: An integrative factor analysis model for drug-pathway association inference

Description

Plot the updated standard deviation of gene in every recorded Gibbs sampling iteration

Usage

mcmc_trace_plot(tau_g_chain, plot_file_name, index)

Arguments

tau_g_chain	The updated precision of each gene in each itertaion. A list with length 2, containing 2 matrices. Each row corresponds to the updated precision of the G1 or G2 genes in each recorded iteration.
plot_file_name	The name of the ".pdf" plot file
index	The index of genes/drugs whose standard deviation in each iteration of the Gibbs sampling is to be drawn in the trace plot. If there are G1 genes and G2 drugs in the dataset, "index" can be a vector with integer values ranging from 1 to (G1+G2).

Examples

library(Rlab)
library(MASS)
library(coda)
library(ROCR)

data(tau_g_chain)
mcmc_trace_plot(tau_g_chain,plot_file_name="Demo_traceplot.pdf", index=1:10)

iFad documentation built on May 2, 2019, 6:50 a.m.