Structstrings
This is the development version of Structstrings; for the stable release version, see Structstrings.
All Bioconductor versions of Structstrings
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9
Implementation of the dot bracket annotations with Biostrings
Bioconductor version: 3.24 · Package version: 1.29.0
The Structstrings package implements the widely used dot bracket annotation for storing base pairing information in structured RNA. Structstrings uses the infrastructure provided by the Biostrings package and derives the DotBracketString and related classes from the BString class. From these, base pair tables can be produced for in depth analysis. In addition, the loop indices of the base pairs can be retrieved as well. For better efficiency, information conversion is implemented in C, inspired to a large extend by the ViennaRNA package.
Author: Felix G.M. Ernst [aut, cre] 
Maintainer: Felix G.M. Ernst <felix.gm.ernst at outlook.com>
Citation
From within R, enter citation("Structstrings"):
Felix G.M. Ernst. Structstrings: Implementation of the dot bracket annotations with Biostrings. doi:10.18129/B9.bioc.Structstrings, R package version 1.29.0, https://bioconductor.org/packages/Structstrings.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("Structstrings")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.29.0 |
| License | Artistic-2.0 |
| URL | https://github.com/FelixErnst/Structstrings |
| Bug Reports | https://github.com/FelixErnst/Structstrings/issues |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.9 (R-3.6) (7 years) |
| Downloads rank | 1184 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Alignment, DataImport, DataRepresentation, Infrastructure, SequenceMatching, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/Structstrings/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("Structstrings")| Structstrings | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | Structstrings_1.29.0.tar.gz |
| Windows binary (x86_64) | Structstrings_1.29.0.zip |
| macOS binary (arm64) | Structstrings_1.29.0.tgz |
| macOS binary (x86_64) | Structstrings_1.29.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Structstrings |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Structstrings |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.0), S4Vectors (>= 0.47.2), IRanges (>= 2.23.9), Biostrings (>= 2.57.2)
Imports: methods, BiocGenerics, XVector, stringr, stringi, crayon, grDevices
Suggests: testthat, knitr, rmarkdown, tRNAscanImport, BiocStyle