HTqPCR

DOI: 10.18129/B9.bioc.HTqPCR    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see HTqPCR.

Automated analysis of high-throughput qPCR data

Bioconductor version: 3.7

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 <hdvinge at fredhutch.org>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("HTqPCR")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("HTqPCR")

 

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	1.34.0
In Bioconductor since	BioC 2.5 (R-2.10) (9 years)
License	Artistic-2.0
Depends	Biobase, RColorBrewer, limma
Imports	affy, Biobase, gplots, graphics, grDevices, limma, methods, RColorBrewer, stats, stats4, utils
LinkingTo
Suggests	statmod
SystemRequirements
Enhances
URL	http://www.ebi.ac.uk/bertone/software
Depends On Me
Imports Me	nondetects, unifiedWMWqPCR
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	HTqPCR_1.34.0.tar.gz
Windows Binary	HTqPCR_1.34.0.zip
Mac OS X 10.11 (El Capitan)	HTqPCR_1.34.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/HTqPCR
Source Repository (Developer Access)	git clone [email protected]:packages/HTqPCR
Package Short Url	http://bioconductor.org/packages/HTqPCR/
Package Downloads Report	Download Stats