marker.detection: Detect circRNA markers To establish a possible impact of...

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

Detect circRNA markers To establish a possible impact of circRNA in gene expression we define two groups of samples defined by similarity in circRNAs expression. K-means algorithm is used to define these two groups and then DESeq test (adj. p-value<.01) have been used to detect circRNA markers.

Description

Detect circRNA markers To establish a possible impact of circRNA in gene expression we define two groups of samples defined by similarity in circRNAs expression. K-means algorithm is used to define these two groups and then DESeq test (adj. p-value<.01) have been used to detect circRNA markers.

Usage

marker.detection(
  circ_id,
  circ.m,
  dds,
  sf,
  method.d,
  method.c,
  k,
  choose.k,
  index.m,
  max.nc = 5,
  median
)

Arguments

circ.m	circRNA id
dds	DeseqDataSet object
sf	sizefactor
method.d	method for calculate matrix distance
method.c	method for clustering
k	number of group in K-means algorithm

Value

data.frame of padj

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