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Search and visualize intramolecular triplex-forming sequences in DNA

Bioconductor version: Release (3.18)

This package provides functions for identification and visualization of potential intramolecular triplex patterns in DNA sequence. The main functionality is to detect the positions of subsequences capable of folding into an intramolecular triplex (H-DNA) in a much larger sequence. The potential H-DNA (triplexes) should be made of as many cannonical nucleotide triplets as possible. The package includes visualization showing the exact base-pairing in 1D, 2D or 3D.

Author: Jiri Hon, Matej Lexa, Tomas Martinek and Kamil Rajdl with contributions from Daniel Kopecek

Maintainer: Jiri Hon <jiri.hon at gmail.com>

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


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Triplex User Guide PDF R Script
Reference Manual PDF


biocViews GeneRegulation, SequenceMatching, Software
Version 1.42.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License BSD_2_clause + file LICENSE
Depends R (>= 2.15.0), S4Vectors(>= 0.5.14), IRanges(>= 2.5.27), XVector(>= 0.11.6), Biostrings(>= 2.39.10)
Imports methods, grid, GenomicRanges
System Requirements
URL http://www.fi.muni.cz/~lexa/triplex/
See More
Suggests rgl (>= 0.93.932), BSgenome.Celegans.UCSC.ce10, rtracklayer
Linking To S4Vectors, IRanges, XVector, Biostrings
Depends On Me
Imports Me
Suggests Me
Links To Me
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Package Archives

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

Source Package triplex_1.42.0.tar.gz
Windows Binary triplex_1.42.0.zip
macOS Binary (x86_64) triplex_1.42.0.tgz
macOS Binary (arm64) triplex_1.42.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/triplex
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/triplex
Bioc Package Browser https://code.bioconductor.org/browse/triplex/
Package Short Url https://bioconductor.org/packages/triplex/
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