HTqPCR

DOI: 10.18129/B9.bioc.HTqPCR  

This is the development version of HTqPCR; for the stable release version, see HTqPCR.

Automated analysis of high-throughput qPCR data

Bioconductor version: Development (3.18)

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 (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("HTqPCR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF		Reference Manual

Details

biocViews	DataImport, DifferentialExpression, GeneExpression, MicrotitrePlateAssay, MultipleComparison, Preprocessing, QualityControl, Software, Visualization, qPCR
Version	1.55.0
In Bioconductor since	BioC 2.5 (R-2.10) (13.5 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
Windows Binary	HTqPCR_1.55.0.zip (64-bit only)
macOS Binary (x86_64)	HTqPCR_1.55.0.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/HTqPCR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HTqPCR
Bioc Package Browser	https://code.bioconductor.org/browse/HTqPCR/
Package Short Url	https://bioconductor.org/packages/HTqPCR/
Package Downloads Report	Download Stats