class.vsnInput: Class to contain input data and parameters for vsn functions

Description Creating Objects Slots Methods Author(s) See Also

Description

Class to contain input data and parameters for vsn functions

Creating Objects

new("vsnInput")

Slots

x:

A numeric matrix with the input data.

reference:

An object of vsn, typically this would have been obtained from a previous fit to a set of reference arrays (data).

strata:

A factor of length 0 or n. If its length is n, then its levels correspond to different normalization strata (see vsn2).

ordered:

Logical scalar; are the rows reordered so that the strata are contiguous.

lts.quantile:

Numeric scalar, seevsn2.

subsample:

Integer scalar, seevsn2.

verbose:

Logical scalar, seevsn2.

calib

Character of length 1, see manual page of vsn2.

pstart:

A 3D array of size (number of strata) x (number of columns of the data matrix) x 2. It contains the start parameters.

optimpar:

List with parameters for the numerical optimiser L-BFGS-B; see the manual page of vsn2.

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

Author(s)

Wolfgang Huber

See Also

vsn2


vsn documentation built on May 31, 2017, 11:06 a.m.

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