plotMixlowData {mixlow} | R Documentation |
Plots results obtained from the prepareData
function.
plotMixlowData(mixlowData, trays=getTrays(mixlowData), ask, showBlanks= TRUE)
mixlowData |
A list obtained from the prepareData function. |
trays |
A vector of strings indicating the trays for which data should be plotted. |
ask |
Logical. If TRUE (and the R session is interactive) the user is asked for input, before a new figure is drawn. |
showBlanks |
Logical. If TRUE, data from the optical control wells
(“blanks”) in a tray are included in the graph. Default is
TRUE |
This function is used to plot prepared data. Adjusted concentration-response
data are plotted, and mean responses over replicate wells
receiving identical drug concentrations are connected by a line.
The adjustments subtracted from the raw data (see PrepareData
function)
can be included in the plot by setting showBlanks
equal to TRUE
.
For purposes of plotting on a log-scale plot, drug concentrations of zero are changed to
1/1000 of the lowest nonzero drug concentration. This adjustment only
affects plotting, not analysis.
A list of length equal to the number of trays with components:
drug |
Drug name |
cell |
Cell line name |
Units |
Units of measurement |
title |
Title for plot |
adjResp |
Adjusted response data |
adjConc |
Adjusted concentration data |
ylim |
y limits of plot |
meanLineY |
Response values for mean line between group replicates |
meanLineX |
Concentration values for mean line between group replicates |
blankY |
Responses from optical control wells |
blankX |
Concentrations for optical control wells |
blankLineY |
Responses for optical control data line |
blankLineX |
Concentrations for optical control data line |
John Boik jcboik@stanford.edu
# mixlowData data object is obtained using the prepareData function data(mixlowData) trays <- getTrays(mixlowData) saved_mixlow_graphing_data <- plotMixlowData(mixlowData=mixlowData, trays= trays[1:9], ask=FALSE, showBlanks= TRUE)