HTqPCR

Automated analysis of high-throughput qPCR data

Bioconductor version: Release (2.14)

Analysis of Ct values from high throughput quantitative real-time PCR (qPCR) assays across multiple conditions or replicates. The input data can be from spatially-defined formats such ABI TaqMan Low Density Arrays or OpenArray; LightCycler from Roche Applied Science; the CFX plates from Bio-Rad Laboratories; conventional 96- or 384-well plates; or microfluidic devices such as the Dynamic Arrays from Fluidigm Corporation. HTqPCR handles data loading, quality assessment, normalization, visualization and parametric or non-parametric testing for statistical significance in Ct values between features (e.g. genes, microRNAs).

Author: Heidi Dvinge, Paul Bertone

Maintainer: Heidi Dvinge <heidi at ebi.ac.uk>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("HTqPCR")

To cite this package in a publication, start R and enter:

    citation("HTqPCR")

Documentation

PDF R Script qPCR analysis in R
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, DifferentialExpression, GeneExpression, MicrotitrePlateAssay, MultipleComparison, Preprocessing, QualityControl, Software, Visualization, qPCR
Version 1.18.0
In Bioconductor since BioC 2.5 (R-2.10)
License Artistic-2.0
Depends Biobase, RColorBrewer, limma
Imports affy, Biobase, gplots, graphics, grDevices, limma, methods, RColorBrewer, stats, stats4, utils
Suggests statmod
System Requirements
URL http://www.ebi.ac.uk/bertone/software
Depends On Me
Imports Me nondetects, unifiedWMWqPCR
Suggests Me

Package Downloads

Package Source HTqPCR_1.18.0.tar.gz
Windows Binary HTqPCR_1.18.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) HTqPCR_1.18.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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