HTqPCR
This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see HTqPCR.
Automated analysis of high-throughput qPCR data
Bioconductor version: 3.10
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("HTqPCR")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HTqPCR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HTqPCR")| qPCR analysis in R | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DifferentialExpression, GeneExpression, MicrotitrePlateAssay, MultipleComparison, Preprocessing, QualityControl, Software, Visualization, qPCR |
| Version | 1.40.0 |
| In Bioconductor since | BioC 2.5 (R-2.10) (14.5 years) |
| License | Artistic-2.0 |
| Depends | Biobase, RColorBrewer, limma |
| Imports | affy, Biobase, gplots, graphics, grDevices, limma, methods, RColorBrewer, stats, stats4, utils |
| System Requirements | |
| URL | http://www.ebi.ac.uk/bertone/software |
See More
| Suggests | statmod |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | nondetects, unifiedWMWqPCR |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HTqPCR_1.40.0.tar.gz |
| Windows Binary | HTqPCR_1.40.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | HTqPCR_1.40.0.tgz |
| 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 |
| Old Source Packages for BioC 3.10 | Source Archive |