getMain {RNAinteract} | R Documentation |
Returns the main effects.
getMain(sgi, type = "main", design = "template", summary = "none", QueryNr = NULL, TemplatePlate = NULL, do.inv.trafo = FALSE, format = "plain", withoutgroups = c(), screen = NULL, channel = NULL, normalized = TRUE, drop = TRUE) getMainNeg(sgi, type = "all", do.inv.trafo = FALSE, screen = NULL, channel = NULL, drop = TRUE)
sgi |
An object of class |
type |
always "main" |
design |
Either "template" or "query" defining if template or query main effects are returned. |
summary |
If summary is "targets" the main effects are summarized per target gene. |
QueryNr,TemplatePlate |
Onle main effects of one query nr or one template plate are returned. |
format |
targetmatrix |
withoutgroups |
The genes within this group are not shown in the heatmap. It is convenient to hide screen controls. |
do.inv.trafo |
If TRUE, the data will be back-transformed for original scale of data. In the case of log-transformed data, the main effects are returned as factors, otherwise the main effects are returned as log values. |
screen |
The screen from which the main effects should be returned. |
channel |
The channel from which the main effects should be returned. |
drop |
Does return a drop array dimensions, even if only one screen or one channel is selected. |
normalized |
If true the normalized main effects are returned. |
An array containing the main effects.
Bernd Fischer
data("sgi") getMain(sgi) getMainNeg(sgi)