run_lmfit: Perform lmFit analysis from limma.

In alexvpickering/crossmeta: Cross Platform Meta-Analysis of Microarray Data

Perform lmFit analysis from limma.

Description

If paired samples, runs duplicateCorrelation to estimate intra-patient variance.

Usage

run_lmfit(eset, mod, rna_seq = TRUE)

Arguments

eset	Annotated eset created by load_raw. Non-selected samples and duplicate features removed by add_contrasts and iqr_replicates.
mod	Model matrix generated by diff_setup. With or without surrogate variables.
rna_seq	Is this an RNA-seq eset? Default is TRUE.

Value

result from call to limma lmFit.

alexvpickering/crossmeta documentation built on May 23, 2024, 5:06 a.m.