ROC {cellHTS} | R Documentation |
The function ROC
construct an object of S3 class ROC
,
which represents a receiver-operator-characteristic curve,
from the data of the annotated positive and negative controls in a
scored cellHTS
object.
ROC(x, positives, negatives) ## S3 method for class 'ROC': plot(x, col="darkblue", type="l", main = "ROC curve", ...) ## S3 method for class 'ROC': lines(x, ...)
x |
a cellHTS object that has already been scored (see details). |
positives |
a list or vector of regular expressions specifying the name of the positive controls.
See the details for the argument posControls of writeReport function. |
negatives |
a vector of regular expressions specifying the name of the negative controls.
See the details for the argument negControls of writeReport function. |
col |
the graphical parameter for color; see par for details. |
type |
the graphical parameter giving the type of plot desired; see par for details. |
main |
the graphical parameter giving the desired title of plot; see par for details. |
... |
other graphical parameters as in par may be also passed as arguments. |
The cellHTS
object x
must contain a slot called score
,
and selection proceeds from large to small values of this score.
Furthermore, x
is expected to contain positive and negative
controls annotated in the slot wellAnno
with the values of
the arguments positives
and negatives
, respectively.
If the assay is a two-way experiment, positives
should be a list with components act
and inh
, specifying the name of the activators, and inhibitors, respectively. In this case, the ROC cureve is constructed based on the absolute values of x$score
.
An S3 object of class ROC
. There are methods
plot.ROC
and lines.ROC
.
Ligia P. Bras ligia@ebi.ac.uk
data(KcViabSmall) ## Not run: x <- normalizePlates(KcViabSmall, normalizationMethod="median", zscore="-") x <- summarizeReplicates(x) y <- ROC(x) plot(y) lines(y) ## End(Not run)