summary-GSEATests-method: Summarize gene set enrichment tests

Description Usage Arguments Value See Also Examples

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

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

Arguments

object

A GSEATests object

...

passed to calcZ

Value

data.table

See Also

gseaAfterBoot

Examples

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## See the examples in gseaAfterBoot
example(gseaAfterBoot)

MAST documentation built on Nov. 8, 2020, 8:19 p.m.