Plots observed expression vs. nominal concentration. The overall
regression slope, as well as, regression slopes for low, medium, and
high bins are computed and the regression lines plotted.
quantiles used to make the low, medium, and high bins
...
arguments passed to the plot function
Value
avgExp
average expression at each nominal concentration
slopes
the regression slopes - overall and for each bin
breaks
which spike-in levels fall in each bin
brkpts
the expression value of the cut points between bins
prop
the proportion of non-spike-in probes with expression less
than the average expression at each nominal concentration
Details
The bins are created by computing the proportion of non-spike-in genes
with expression values less than or equal to the average expression
value at each nominal concentration. Using the default value of cuts,
the high bin contains nominal concentrations with 99 percent or more
of the non-spike-in expression
values lower than it. The medium bin contains nominal concentrations
with between 60 and 99 percent of the non-spike-in expression values
lower than it. The low bin contains nominal concentrations with less
than 60 percent of the non-spike-in expression values lower than it.