plotBasic
From BGmix v1.32.0
by Alex Lewin
Basic plots of BGmix parameters and data.
Plots gene effects and variances versus their corresponding data sufficient statistics (to show the effect of smoothing and shrinkage). Also plots "volcano plots": posterior probabilities of being classified in each mixture component versus the log fold change parameters.
 Keywords
 hplot
Usage
plotBasic(res, ybar, ss, q.mean = T, q.diff = T, q.sig = T, q.volcano = T)
Arguments
 res
 list object output from 'ccParams'
 ybar
 ybar data (see
BGmix
help for details)  ss
 ss data (see
BGmix
help for details)  q.mean
 logical. Include mean plot?
 q.diff
 logical. Include log fold change plot?
 q.sig
 logical. Include variance plot?
 q.volcano
 logical. Include volcana plot (posterior classification v. fold change)?
Details
Note this plotting function is designed for model output from the unpaired differential expression design.
Value

No value is returned to R. Results from BGmix model are output to files.
Examples
## Note this is a very short MCMC run!
## For good analysis need proper burnin period.
data(ybar,ss)
outdir < BGmix(ybar, ss, c(8,8), nburn=0, niter=100, nthin=1)
params < ccParams(outdir)
plotBasic(params,ybar,ss)
Community examples
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