mgsa-class: Class '"mgsa"'

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

Description

mgsa class here.

Objects from the Class

Objects can be created by calls of the form new("mgsa", ...).

Slots

call:

call

moa:

Object of class moa

sup:

Object of class moa.sup

Methods

combine

signature(x = "mgsa", y = "mgsa")

To combine two objects of class "mgsa" This function could only be used to combine two "mgsa" objects, using "Reduce" function to combine more.

show

signature(x = "moa", y = "missing"): show the "mgsa" result.

Author(s)

Chen Meng

See Also

moa and moa.sup

Examples

  showClass("mgsa")
  # library(mogsa)
  # loading gene expression data and supplementary data
  data(NCI60_4array_supdata)
  data(NCI60_4arrays)
  # split gene set annotation into two sets.
  sup1 <- lapply(NCI60_4array_supdata, function(x) x[, 1:10])
  sup2 <- lapply(NCI60_4array_supdata, function(x) x[, -(1:10)])
  # project two sets of annotation
  mgsa1 <- mogsa(x = NCI60_4arrays, sup=sup1, nf=9,
                proc.row = "center_ssq1", w.data = "inertia", statis = TRUE)
  mgsa2 <- mogsa(x = NCI60_4arrays, sup=sup2, nf=9,
                 proc.row = "center_ssq1", w.data = "inertia", statis = TRUE)
  # combine two indenpendent mgsa sets
  mgsa_comb <- combine(mgsa1, mgsa2)
  dim(getmgsa(mgsa1, "fac.scr"))
  dim(getmgsa(mgsa2, "fac.scr"))
  dim(getmgsa(mgsa_comb, "fac.scr"))

mogsa documentation built on Nov. 8, 2020, 5:41 p.m.