Description Usage Arguments Value Note See Also Examples
This function highlights a prespecified proportion of extreme points on the M vs A plots.
1 | plot.confband.points(x, M, crit1=0.025, crit2=crit1, nclass=10, col.ex, ...)
|
x |
a vector giving the x-coordinates of the points in the scatter plot. In the microarray context, this could be a vector of average log intensities. ie A |
M |
a vector giving the y-coordinates of the points in the scatter plot. In the microarray context, this could be a vector of log intensity ratios. |
crit1 |
The number of points to be highlighted on the M vs A plot. If crit1 < 1, the crit1*100% spots with the smallest M values will be highlighted. If crit1 >= 1, the crit spots with the smallest M values are highlighted. |
crit2 |
Similar to "crit1". If crit2 < 1, the crit2*100% spots with the largest M values will be highlighted. If crit2 >= 1, the crit2 spots with the smallest M values are highlighted. |
nclass |
A single number giving the approximate number of intensity depedent groups to consider. |
col.ex |
A color for extreme points |
... |
graphical parameters may also be supplied as arguments
to the function (see |
Points are added to the current plot.
An M vs A plot must be constructed prior to the execution of this function.
plot.mva
, stat.ma
,
lines
, matlines
,
plot.confband.text
, plot.confband.lines
.
1 2 3 4 5 6 7 8 9 10 11 12 | data(MouseArray)
## mouse.setup <- init.grid()
## mouse.data <- init.data()
plot.mva(mouse.data, mouse.setup) ## an M vs A plot
mouse.lratio <- stat.ma(mouse.data, mouse.setup)
plot.confband.points(mouse.lratio$A, mouse.lratio$M)
## 2.5% of the spots with the smallest and largest M values are
## highlighted on the M vs A plot.
|
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