RankNorm: Rank Normalization

In EBSeq: An R package for gene and isoform differential expression analysis of RNA-seq data

Description

'RankNorm' gives the rank normalization.

Usage

RankNorm(Data)

Arguments

Data	The data matrix with transcripts in rows and lanes in columns.

Value

The function will return a matrix contains the normalization factor for each lane and each transcript.

Author(s)

Ning Leng

See Also

MedianNorm, QuantileNorm

Examples

data(GeneMat)
Sizes = RankNorm(GeneMat)
# Run EBSeq
# EBres = EBTest(Data = GeneData, NgVector = rep(1,10^4), 
#	Vect5End = rep(1,10^4), Vect3End = rep(1,10^4), 
#	Conditions = as.factor(rep(c(1,2), each=5)), 
#	sizeFactors = Sizes, maxround=5)

Example output

Loading required package: blockmodeling
To cite package 'blockmodeling' in publications please use package
citation and (at least) one of the articles:

  <U+017D>iberna, Ale<U+0161> (2007). Generalized blockmodeling of valued networks.
  Social Networks 29(1), 105-126.

  <U+017D>iberna, Ale<U+0161> (2008). Direct and indirect approaches to blockmodeling
  of valued networks in terms of regular equivalence. Journal of
  Mathematical Sociology 32(1), 57<U+2013>84.

  ?iberna, Ale? (2018).  Generalized and Classical Blockmodeling of
  Valued Networks, R package version 0.3.4.

To see these entries in BibTeX format, use 'print(<citation>,
bibtex=TRUE)', 'toBibtex(.)', or set
'options(citation.bibtex.max=999)'.
Loading required package: gplots

Attaching package: 'gplots'

The following object is masked from 'package:stats':

    lowess

Loading required package: testthat

EBSeq documentation built on Nov. 8, 2020, 6:52 p.m.