getMatrix {cellHTS} | R Documentation |
Given an array of raw or normalized intensities (xraw
or
xnorm
) of a cellHTS
object, creates a matrix with the data from the chosen
channel.
getMatrix(y, channel=1, na.rm=FALSE)
y |
an array with four dimensions, such as the slot xraw or
xnorm of a cellHTS object. |
channel |
a numeric value corresponding to the selected channel
of y . By default, the first channel (that is, y[,,,1] is considered). |
na.rm |
Logical, indicated if the missing values should be omitted. |
Given as input an array y
(e.g., the slot xraw
, or xnorm
of a
cellHTS
object) with dimensions nr wells x nr plates x
nr replicates x nr channels
, this function creates a matrix with the data for
the chosen channel
. Each replicate corresponds to a column of
the output matrix.
If na.rm
is set to TRUE
, only the positions with
available values for all the replicates are given in the
output matrix.
A matrix with the same number of columns as the number of replicates (third
dimension of y
).
If na.rm=FALSE
(the default), the number of rows of the output matrix
is identical to the product between the first two
dimensions of y
(nr wells x nr plates
). If na.rm=TRUE
, only the
rows with no missing entries in all the replicates (columns) are
given.
Ligia Bras ligia@ebi.ac.uk
data(KcViabSmall) y <- getMatrix(KcViabSmall$xraw)