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>

Citation (from within R, enter citation("HTqPCR")):

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

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