MAView {MAGeCKFlute} | R Documentation |
MAplot of gene beta scores in Control vs Treatment
MAView(beta, ctrlname = "Control", treatname = "Treatment", main = NULL, show.statistics = TRUE, add.smooth = TRUE, lty = 1, smooth.col = "red", plot.method = c("loess", "lm", "glm", "gam"), filename = NULL, width = 5, height = 4, ...)
beta |
Data frame, including |
ctrlname |
Character vector, specifying the name of control sample. |
treatname |
Character vector, specifying the name of treatment sample. |
main |
As in plot. |
show.statistics |
Show statistics . |
add.smooth |
Whether add a smooth line to the plot. |
lty |
Line type for smooth line. |
smooth.col |
Color of smooth line. |
plot.method |
A string specifying the method to fit smooth line, which should be one of "loess" (default), "lm", "glm" and "gam". |
filename |
Figure file name to create on disk. Default filename="NULL", which means don't save the figure on disk. |
width |
As in ggsave. |
height |
As in ggsave. |
... |
Other available parameters in function 'ggsave'. |
An object created by ggplot
, which can be assigned and further customized.
Wubing Zhang
data(MLE_Data) # Read beta score from gene summary table in MAGeCK MLE results dd = ReadBeta(MLE_Data, organism="hsa") MAView(dd, ctrlname = "D7_R1", treatname = "PLX7_R1")