Description Creating Objects Slots Methods Author(s) See Also Examples
Class to contain result of a vsn fit
new("vsn")
vsn2(x)
with x
being an
ExpressionSet
.
coefficients
:A 3D array of size (number of strata) x (number of columns of the data matrix) x 2. It contains the fitted normalization parameters (see vignette).
strata
:A factor of length 0 or n. If its length is n, then its levels correspond to different normalization strata (see vignette).
mu
:A numeric vector of length n with the fitted parameters \hat{μ}_k, for k=1,...,n.
sigsq
:A numeric scalar, \hat{σ}^2.
hx
:A numeric matrix with 0 or n rows. If the number of
rows is n, then hx
contains the transformed data matrix.
lbfgsb
:An integer scalar containing the return code from the L-BFGS-B optimizer.
hoffset
:Numeric scalar, the overall offset c- see
manual page of vsn2
.
calib
:Character of length 1, see manual page of
vsn2
.
[
Subset
dim
Get dimensions of data matrix.
nrow
Get number of rows of data matrix.
ncol
Get number of columns of data matrix.
show
Print a summary of the object
exprs
Accessor to slot hx
.
coef
, coefficients
Accessors to slot
coefficients
.
Wolfgang Huber
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