pinnacleEnrich: Evaluate enrichment statistics

Description Usage Arguments Value

Description

Evaluate enrichment statistics

Usage

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pinnacleEnrich(vobj, fit, L, coef, corrStruct, df_peakGeneMap, geneSets,
  decay = 0.00016, quiet = FALSE, alternative = "two.sided")

Arguments

vobj

voom result

fit

model fit from lmFit

L

contrast matrix

coef

indicate contrast

corrStruct

object from evalCorrelationDecomp() storing SVD of covariance matrix

df_peakGeneMap

data.frame mapping peaks to genes

geneSets

gene sets

decay

weight function parameter for transforming distance from peak to gene

quiet

suppress messages

alternative

perform two-sided test?

Value

data.frame of enrichment results


GabrielHoffman/pinnacle documentation built on May 3, 2019, 3:02 p.m.