Description Usage Arguments Value Examples
Plots all parameter values, including tree topologies (see makeplot.topology) over the length of the MCMC chain
1 2 | makeplot.all.params(chains, burnin = 0, facet = TRUE, free_y = FALSE,
strip = 1)
|
chains |
A set of rwty.chain objects |
burnin |
The number of trees to omit as burnin. |
facet |
Boolean denoting whether to make a facet plot. |
free_y |
TRUE/FALSE to turn free y scales on the facetted plots on or off (default FALSE). Only works if facet = TRUE. |
strip |
Number indicating which column to strip off (i.e., strip=1 removes first column, which is necessary for most MCMC outputs in which the first column is just the generation). You can skip multiple columns by passing a vector of columns to skip, e.g., strip=c(1,4,6). |
param.plot Returns a list of ggplot objects.
1 2 3 4 5 | ## Not run:
data(fungus)
makeplot.all.params(fungus, burnin=20)
## End(Not run)
|
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