calcCV: Calculates the Average Gene-Specific Coefficient of Variation

In qpcrNorm: Data-driven normalization strategies for high-throughput qPCR data.

Description

This function calculates the coefficient of variation for each gene in the qPCR experiment, and returns the average coefficient of variation across all genes.

Usage

calcCV(qBatch)

Arguments

qBatch

A qpcrBatch object.

Value

A numeric value.

Author(s)

Jess Mar [e-mail]

Examples

	data(qpcrBatch.object) 
	mynormRI.data <- normQpcrRankInvariant(qpcrBatch.object, 1)
	mynormQuant.data <- normQpcrQuantile(qpcrBatch.object)    
	barplot(c(calcCV(mynormRI.data), calcCV(mynormQuant.data)), col=c("red", "blue"))

Example output

Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
    intersect, is.unsorted, lapply, lengths, mapply, match, mget,
    order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: limma

Attaching package: 'limma'

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

    plotMA

Loading required package: affy
Warning message:
In read.dcf(con) :
  URL 'http://bioconductor.org/BiocInstaller.dcf': status was 'Couldn't connect to server'

qpcrNorm documentation built on Nov. 8, 2020, 4:54 p.m.