run_TWilcox: Differential Expression Analysis by T test or Wilcox-rank-sum...
In HuaZou/MyRtools: Statistic Approaches on Data Analysis

Description Usage Arguments Details Value Author(s) Examples

The data of features maybe either non-normal distribution or normal distribution(Gauss Distribution). shapiro.test is used to check the distribution. T-test is for normal distribution, while Wilcox-rank-sum test is for non-normal distribution. The log2FoldChange is calculate by the geometricmean or median of two groups after a linear scale (Zscore).

run_Wilcox(dataset=ExpressionSet,
                  trim="none",
                  transform="none",
                  normalize="none",
                  Group_info="Group",
                  Group_name=c("HC", "AA"),
                  Pvalue=0.05,
                  Log2FC=1)

`trim,`	Character; filter to apply.(default: trim="none").
`transform,`	Character; transformation to apply.(default: tranform="none").
`normalize,`	Character; normalization to apply.(default: normalize="none").
`Group_info,`	Character; design factor(default: "Group").
`Group_name,`	Character; (Required) the group for comparison.
`Pvalue,`	Numeric; significant level(default: 0.05).
`Log2FC,`	Numeric; log2FoldChange(default: 1).
`Expression,`	ExpressionSet; (Required) ExpressionSet object.

12/3/2021 Guangzhou China

significant difference with enriched directors

Hua Zou

data(ExprSetRawRB)

TWilcox_res <- run_TWilcox(dataset=ExprSetRawRB, Group_info="Group", Group_name=c("HC", "AA"), Pvalue=0.05, Log2FC=1)
TWilcox_res$res