Usage
normalize.loess(mat, subset = sample(1:(dim(mat)[1]), min(c(5000, nrow(mat)))), epsilon = 10^-2, maxit = 1, log.it = TRUE, verbose = TRUE, span = 2/3, family.loess = "symmetric")
normalize.AffyBatch.loess(abatch,type=c("together","pmonly","mmonly","separate"), ...)
Arguments
mat
a matrix with columns containing the values of the chips
to normalize.
subset
a subset of the data to fit a loess to.
epsilon
a tolerance value (supposed to be a small value - used
as a stopping criterion).
maxit
maximum number of iterations.
log.it
logical. If TRUE
it takes the log2 of mat
verbose
logical. If TRUE
displays current pair of chip being
worked on.
span
parameter to be passed the function loess
family.loess
parameter to be passed the function
loess
. "gaussian"
or "symmetric"
are acceptable values for this parameter. type
A string specifying how the normalization should be
applied. See details for more.
...
any of the options of normalize.loess you would like to
modify (described above).