A data.frame with (at least) three columns, the first containing the
mean expression values (for the x-axis), the second the logarithmic fold change
(for the-y axis) and the third
a logical vector indicating significance (for the colouring of the dots).
ylim
The limits for the y-axis. If missing, an attempt is made to choose a sensible value.
Dots exceeding the limits will be displayed as triangles at the limits, pointing outwards.
colNonSig
colour to use for non-significant data points.
colSig
colour to use for significant data points.
colLine
colour to use for the horizontal (y=0) line.
log
which axis/axes should be logarithmic; will be passed to plot.