avereps {limma} | R Documentation |
Condense a microarray data object so that values for within-array replicate spots are replaced with their average.
## Default S3 method: avereps(x, ID=rownames(x)) ## S3 method for class 'MAList': avereps(x, ID=NULL)
x |
a matrix-like object, usually a matrix or an MAList object. |
ID |
probe identifier. |
A new data object is computed in which each probe is represented by the average of its replicate spots.
For an MAList
object, the components M
and A
are both averaged in this way, as weights
and any matrices found in object$other
.
For an MAList
object, ID
defaults to MA$genes$ID
is that exists, otherwise to rownames(MA$M)
.
If x
is of mode "character"
, then the replicate values are assumed to be equal and the first is taken as the average.
A data object of the same class as x
with a row for each unique value of ID
.
Gordon Smyth
dimnames
in the base package.
02.Classes gives an overview of data classes used in LIMMA.