circ_contrib: Select circRNA markers To establish a possible impact of...

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

Select circRNA markers To establish a possible impact of circRNA in gene expression we select a subset of circRNA defined as markers: only circRNA which expression can discretize two groups (DESeq adj. p-value<.01) have been selected.

Description

Select circRNA markers To establish a possible impact of circRNA in gene expression we select a subset of circRNA defined as markers: only circRNA which expression can discretize two groups (DESeq adj. p-value<.01) have been selected.

Usage

circ_contrib(matrix_pc, K)

Arguments

dat	circRNA data set
dds	DeseqDataSet object filterd
sf	sizefactor
p.cutoff	select only circRNAs signficantly differentially expressed
lfc.cutoff	log fold change cutoff to select circRNAs highly deregulated
k	number of group in K-means algorithm
method.d	method for calculate matrix distance
method.c	method for clustering

Value

Table of top K circRNA for subsequent analysis

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