Stat.nonpara.permu: Stat.nonpara.permu

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

Description

Stat.nonpara.permu

Usage

Stat.nonpara.permu(
  Probe,
  Gene,
  Top = 0.2,
  correlation = "negative",
  unmethy = NULL,
  methy = NULL,
  Meths = Meths,
  Exps = Exps
)

Arguments

Probe	A character of name of Probe in array.
Gene	A vector of gene ID.
Top	A number determines the percentage of top methylated/unmethylated samples. Only used if unmethy and methy are not set.
correlation	Type of correlation to evaluate (negative or positive). Negative (default) checks if hypomethylated region has a upregulated target gene. Positive checks if region hypermethylated has a upregulated target gene.
unmethy	Index of U (unmethylated) group.
methy	Index of M (methylated) group.
Meths	A matrix contains methylation for each probe (row) and each sample (column).
Exps	A matrix contains Expression for each gene (row) and each sample (column).

Value

U test results

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