NormqPCR: Functions for normalisation of RT-qPCR data

Functions for the selection of optimal reference genes and the normalisation of real-time quantitative PCR data.

Author
Matthias Kohl, James Perkins, Nor Izayu Abdul Rahman
Date of publication
None
Maintainer
James Perkins <j.perkins@ucl.ac.uk>
License
LGPL-3
Version
1.20.0
URLs

View on Bioconductor

Man pages

Bladder
Bladder dataset of Andersen et al (2004)
BladderRepro
Dataset of Andersen et al (2004)
Colon
Colon dataset of Andersen et al (2004)
combineTechReps
Combines Technical Replicates
combineTechRepsSD
Combines Technical Replicates
ComputeNRQs
Compute Normalized Relative Quantities
CqValues
Compute Cq value and amplification efficiency
deltaCt
Perform normalization with a given housekeeping gene
deltaDeltaCt
Perform normalization and differential expression with given...
geNorm
Data set of Vandesompele et al (2002)
geomMean
Geometric Mean
makeAllNAs
Make all Cq values NA
makeAllNewVal
Make all Cq values NA
NormqPCR-package
Functions for normalisation of RT-qPCR data.
replaceAboveCutOff
Replace Cq values with new value
replaceNAs
Replace NAs with a given value
selectHKs
Selection of reference/housekeeping genes
stabMeasureM
Gene expression stability value M
stabMeasureRho
Gene expression stability value rho

Files in this package

NormqPCR/DESCRIPTION
NormqPCR/NAMESPACE
NormqPCR/R
NormqPCR/R/ComputeNRQs.R
NormqPCR/R/CqValues.R
NormqPCR/R/CtToCqWrappers.R
NormqPCR/R/allGenerics.R
NormqPCR/R/combineTechReps.R
NormqPCR/R/combineTechRepsWithSD.R
NormqPCR/R/dealWithNA.R
NormqPCR/R/deltaCt.R
NormqPCR/R/deltaDeltaCt.R
NormqPCR/R/geomMean.R
NormqPCR/R/selectHKs.R
NormqPCR/R/stabMeasureM.R
NormqPCR/R/stabMeasureRho.R
NormqPCR/build
NormqPCR/build/vignette.rds
NormqPCR/data
NormqPCR/data/Bladder.RData
NormqPCR/data/BladderRepro.RData
NormqPCR/data/Colon.RData
NormqPCR/data/geNorm.RData
NormqPCR/inst
NormqPCR/inst/CITATION
NormqPCR/inst/doc
NormqPCR/inst/doc/NormqPCR.R
NormqPCR/inst/doc/NormqPCR.Rnw
NormqPCR/inst/doc/NormqPCR.pdf
NormqPCR/inst/exData
NormqPCR/inst/exData/example.txt
NormqPCR/inst/exData/qPCR.techReps.txt
NormqPCR/man
NormqPCR/man/Bladder.Rd
NormqPCR/man/BladderRepro.Rd
NormqPCR/man/Colon.Rd
NormqPCR/man/ComputeNRQs.Rd
NormqPCR/man/CqValues.Rd
NormqPCR/man/NormqPCR-package.Rd
NormqPCR/man/combineTechReps.Rd
NormqPCR/man/combineTechRepsSD.Rd
NormqPCR/man/deltaCt.Rd
NormqPCR/man/deltaDeltaCt.Rd
NormqPCR/man/geNorm.Rd
NormqPCR/man/geomMean.Rd
NormqPCR/man/makeAllNAs.Rd
NormqPCR/man/makeAllNewVal.Rd
NormqPCR/man/replaceAboveCutOff.Rd
NormqPCR/man/replaceNAs.Rd
NormqPCR/man/selectHKs.Rd
NormqPCR/man/stabMeasureM.Rd
NormqPCR/man/stabMeasureRho.Rd
NormqPCR/vignettes
NormqPCR/vignettes/NormqPCR.Rnw