Stat.diff.meth: Stat.diff.meth

In ELMER: Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

Description

Stat.diff.meth

Usage

Stat.diff.meth(
  meth,
  groups,
  group1,
  group2,
  test = t.test,
  min.samples = 5,
  percentage = 0.2,
  Top.m = NULL
)

Arguments

meth	A matrix contain DNA methylation data.
groups	A vector of category of samples.
group1	Group 1 label in groups vector
group2	Group 2 label in groups vector
test	A function specify which statistic test will be used.
min.samples	Minimun number of samples to use in the analysis. Default 5. If you have 10 samples in one group, percentage is 0.2 this will give 2 samples in the lower quintile, but then 5 will be used.
percentage	A number specify the percentage of normal and tumor samples used in the test.
Top.m	A logic. If to identify hypomethylated probe Top.m should be FALSE. hypermethylated probe is TRUE.

Value

Statistic test results to identify differentially methylated probes.

ELMER documentation built on Nov. 8, 2020, 4:59 p.m.