visualisePairing {polyqtlR} | R Documentation |
Visualise pairing of parental homologues
Description
Function to visualise the pairing of parental homologues across the population using graph, with nodes to denote parental homologues and edges to denote deviations from expected proportions under a polysomic model of inheritance
Usage
visualisePairing(
meiosis_report.ls,
pos.col = "red",
neg.col = "blue",
parent,
max.lwd = 20,
datawidemax,
add.label = TRUE,
return.data = FALSE,
...
)
Arguments
meiosis_report.ls |
List output of function |
pos.col |
Colour corresponding to excess of pairing associations predicted (positive deviations), by default red |
neg.col |
Colour corresponding to lack of pairing associations predicted (negative deviations), by default blue |
parent |
The parent, either "P1" (mother) or "P2 (father) |
max.lwd |
Maximum line width, by default 20 |
datawidemax |
This argument is currently a work-around to allow multiple plots to have the same scale (line thicknesses consistent).
No default is provided. To estimate this value, simply set argument |
add.label |
Should a label be applied, giving the maximum deviation in the plot? By default |
return.data |
Should plot data be returned? By default |
... |
Optional arguments passed to |
Value
If return.data = TRUE
, the values for pairwise deviations from the expected numbers are
returned, useful for determining the value datawidemax
to provide consistent scaling across multiple plots
Examples
data("mr.ls")
visualisePairing(meiosis_report.ls = mr.ls,
parent = "P1",
datawidemax = 3)