Generates general GVCF metrics plots for genome-wide GVCF statistics
Usage
plotGvcf(object, ...)
# S4 method for class 'PHGMetrics'
plotGvcf(
object,
metricId = NULL,
f = NULL,
nRow = NULL,
nCol = NULL,
tag = "A",
mData = NULL,
mVar = NULL
)
Arguments
- object
A
PHGMetrics
object containing the gVCF data.- ...
Additional arguments, for use in specific methods
- metricId
A character vector specifying the ID of the metric to be plotted. Only a single ID is supported.
- f
A formula object defining the plot.
- nRow
An integer specifying the number of rows in the plot layout.
- nCol
An integer specifying the number of columns in the plot layout.
- tag
What tag type do you want passed to final plot?
- mData
Add optional metadata
data.frame
object for categorical plotting. This object must contain a singular column namedsample
,taxa
, orline
along with one or more columns containing categorical data for plotting.- mVar
If
mData
is specified, what categorical column do you want plotted? IfNULL
, the first non-sample
/taxa
/line
column will be selected.