multiviz: visualize aspects of MSIsensor/expression relationships

In BiocOncoTK: Bioconductor components for general cancer genomics

Description

visualize aspects of MSIsensor/expression relationships

Usage

multiviz(
  tum = "MESO",
  gene = "TYMS",
  intrans = log10pl1(p = 1),
  inmeth = "auto",
  topmsi = Inf,
  indata,
  nvar = 6
)

Arguments

tum	a TCGA tumor code
gene	a gene symbol used in the indata data.frame
intrans	an instance of the trans() transformation method of scales package
inmeth	a valid setting for method parameter for geom_smooth
topmsi	maximum numeric value for x-axis when plotting against MSI value
indata	a data.frame instance with values for acronym, gene, msival
nvar	numeric() number of variables to show in biplot

BiocOncoTK documentation built on Nov. 8, 2020, 6:03 p.m.