rnaseq_ic: Utility for using voom transformation with TMLE for biomarker...

Description Usage Arguments Value

View source: R/rnaseq.R

Description

This function prepares next-generation sequencing data (counts) for use with the biomarker TMLE procedure by invoking the voom transform of limma.

Usage

1
rnaseq_ic(biotmle, weights = TRUE, ...)

Arguments

biotmle

A bioTMLE object containing next-generation sequencing count data in its "assays" slot.

weights

A logical indicating whether to return quality weights of samples in the output object.

...

Other arguments to be passed to voom or voomWithQualityWeights as appropriate.

Value

EList object containing voom-transformed expression measures of count data (actually, the mean-variance trend) in the "E" slot, to be passed into the biomarker TMLE procedure.


nhejazi/biotmle documentation built on Oct. 15, 2021, 5:46 p.m.