rprimer
This is thereleased version of rprimer; for the devel version, seerprimer.
Design Degenerate Oligos from a Multiple DNA Sequence Alignment
Bioconductor version: Release (3.22)
Functions, workflow, and a Shiny application for visualizing sequence conservation and designing degenerate primers, probes, and (RT)-(q/d)PCR assays from a multiple DNA sequence alignment. The results can be presented in data frame format and visualized as dashboard-like plots. For more information, please see the package vignette.
Author: Sofia Persson [aut, cre]
ORCID: 0000-0003-2611-3030
Maintainer: Sofia Persson <sofiapersson27 at gmail.com>
citation("rprimer")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("rprimer")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("rprimer")| Instructions for use | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment,Coverage,MultipleSequenceAlignment,SequenceMatching,Software,ddPCR,qPCR |
| Version | 1.14.0 |
| In Bioconductor since | BioC 3.15 (R-4.2) (3.5 years) |
| License | GPL-3 |
| Depends | R (>= 4.1) |
| Imports | Biostrings,bslib,DT,ggplot2,IRanges,mathjaxr, methods,patchwork,reshape2,S4Vectors,shiny,shinycssloaders,shinyFeedback |
| System Requirements | |
| URL | https://github.com/sofpn/rprimer |
| Bug Reports | https://github.com/sofpn/rprimer/issues |
See More
| Suggests | BiocStyle,covr,kableExtra,knitr,rmarkdown,styler,testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | rprimer_1.14.0.tar.gz |
| Windows Binary (x86_64) | rprimer_1.14.0.zip (64-bit only) |
| macOS Binary (x86_64) | rprimer_1.14.0.tgz |
| macOS Binary (arm64) | rprimer_1.14.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/rprimer |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/rprimer |
| Bioc Package Browser | https://code.bioconductor.org/browse/rprimer/ |
| Package Short Url | https://bioconductor.org/packages/rprimer/ |
| Package Downloads Report | Download Stats |