gene.expression: Detect dergulated genes using circRNA-impacts as...

In ABuratin/CircTarget: Pipeline for study interaction and association between circular and linear RNA

Detect dergulated genes using circRNA-impacts as stratificator of samples

Description

Detect dergulated genes using circRNA-impacts as stratificator of samples

Usage

gene.expression(
  circ_idofinterest,
  circRNAs,
  linearRNAs,
  group,
  colData,
  covariates,
  padj,
  expr = FALSE
)

Arguments

circ_idofinterest	circRNA-impact ID
circRNAs	normalized read count of circRNAs
linearRNAs	row read count of gene
colData	coldata dataframe
covariates	additinal covariates for batch effect
padj	alpha thershold in deseq test
expr	A TRUE or FALSE variable controlling whether the median expression should be used to define the two group comparison in DEG analysis.

Value

data.frame of gene deregulated per circRNA-impacts

ABuratin/CircTarget documentation built on July 6, 2022, 9:06 a.m.