openPrimeRui

DOI: 10.18129/B9.bioc.openPrimeRui  

Shiny Application for Multiplex PCR Primer Design and Analysis

Bioconductor version: Release (3.16)

A Shiny application providing methods for designing, evaluating, and comparing primer sets for multiplex polymerase chain reaction. Primers are designed by solving a set cover problem such that the number of covered template sequences is maximized with the smallest possible set of primers. To guarantee that high-quality primers are generated, only primers fulfilling constraints on their physicochemical properties are selected.

Author: Matthias Döring [aut, cre], Nico Pfeifer [aut]

Maintainer: Matthias Döring <matthias-doering at gmx.de>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("openPrimeRui")

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("openPrimeRui")

 

HTML	R Script	openPrimeRui
PDF		Reference Manual
Text		NEWS

Details

biocViews	Software, Technology
Version	1.20.0
In Bioconductor since	BioC 3.6 (R-3.4) (5.5 years)
License	GPL-2
Depends	R (>= 4.0.0), openPrimeR(>= 0.99.0)
Imports	shiny (>= 1.0.2), shinyjs (>= 0.9), shinyBS (>= 0.61), DT (>= 0.2), rmarkdown (>= 1.0)
LinkingTo
Suggests	knitr (>= 1.13)
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	openPrimeRui_1.20.0.tar.gz
Windows Binary	openPrimeRui_1.20.0.zip
macOS Binary (x86_64)	openPrimeRui_1.20.0.tgz
macOS Binary (arm64)	openPrimeRui_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/openPrimeRui
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/openPrimeRui
Bioc Package Browser	https://code.bioconductor.org/browse/openPrimeRui/
Package Short Url	https://bioconductor.org/packages/openPrimeRui/
Package Downloads Report	Download Stats