mgsa-class: Class '"mgsa"'

In mengchen18/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", ...).

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"))

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