getmgsa: get values in an object of class "mgsa".

In mengchen18/mogsa: Multiple omics data integrative clustering and gene set analysis

Description

get values/slot in an object of class "mgsa". The "mgsa" consists of two S4 class objects, moa-class and moa.sup-class. This function could extract values in these two components directly.

Usage

getmgsa(mgsa, value)

Arguments

mgsa	An object of class mgsa-class.
value	The name of the value want to extract from "mgsa". See detail for options.

Details

if value in c("call", "moa", "sup"), the function equal function slot.

if value in c("eig", "tau", "partial.eig", "eig.vec", "loading", "fac.scr", "partial.fs", "ctr.obs", "ctr.var", "ctr.tab", "RV"), the function extact corresponding value from moa-class.

if value in c("data", "coord.sep", "coord.comb", "score", "score.data", "score.pc", "score.sep", "p.val"), the function extract value from moa.sup-class.

Value

The function return the selected value in "mgsa".

Author(s)

Chen Meng

References

TBA

Examples

	# library(mogsa)
	# loading gene expression data and supplementary data
	data(NCI60_4array_supdata)
	data(NCI60_4arrays)
	mgsa <- mogsa(x = NCI60_4arrays, sup=NCI60_4array_supdata, nf=9,
	              proc.row = "center_ssq1", w.data = "inertia", statis = TRUE)
	part.eig <- getmgsa(mgsa, "partial.eig")
	barplot(as.matrix(part.eig))

mengchen18/mogsa documentation built on June 7, 2020, 6:05 p.m.