summary-GSEATests-method: Summarize gene set enrichment tests

In RGLab/MAST: Model-based Analysis of Single Cell Transcriptomics

Summarize gene set enrichment tests

Description

Returns a data.table with one row per gene set. This data.table contains columns:

set

name of gene set

cond_Z

Z statistic for continuous component

cont_P

wald P value

cont_effect

difference in continuous regression coefficients between null and test sets (ie, the numerator of the Z-statistic.)

disc_Z

Z statistic for discrete

disc_P

wald P value

disc_effect

difference in discrete regression coefficients between null and test sets.

combined_Z

combined discrete and continuous Z statistic using Stouffer's method

combined_P

combined P value

combined_adj

FDR adjusted combined P value

Usage

## S4 method for signature 'GSEATests'
summary(object, ...)

Arguments

object	A GSEATests object
...	passed to calcZ

Value

data.table

See Also

gseaAfterBoot

Examples

## See the examples in gseaAfterBoot
example(gseaAfterBoot)

RGLab/MAST documentation built on Sept. 30, 2023, 1:08 p.m.