vsn {vsn}R Documentation

Class to contain result of a vsn fit

Description

Class to contain result of a vsn fit

Creating Objects

new("vsn") vsn2(x) with x being an ExpressionSet.

Slots

par:
A 3D array of size (number of strata) x (number of columns of the data matrix) x 2 containing fitted normalization parameters (see vignette).
n:
An integer scalar containing n, the number of rows of the data matrix.
strata:
A factor of length 0 or n. If its length is n, then its levels correspond to different normalization strata (see vignette).
refh:
A numeric vector of length 0 or n. If its length is n, then these are the fitted parameters $hat{μ}_k$, $k=1,...,n$.
refsigma:
A numeric scalar, $hat{σ}$.
hx:
A numeric matrix with 0 or n rows. If the number of rows is n, then hx contains the transformed data matrix.

Methods

[
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.

Author(s)

Wolfgang Huber http://www.ebi.ac.uk/huber

See Also

vsn2

Examples

  data("kidney")
  v = vsn2(kidney)
  show(v)
  dim(v)
  v[1:10, ]

[Package vsn version 2.2.0 Index]