Package: triplex 1.52.0

Jiri Hon

triplex: Search and visualize intramolecular triplex-forming sequences in DNA

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.

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

triplex_1.52.0.tar.gz
triplex_1.52.0.zip(r-4.7)triplex_1.52.0.zip(r-4.6)triplex_1.52.0.zip(r-4.5)
triplex_1.52.0.tgz(r-4.6-x86_64)triplex_1.52.0.tgz(r-4.6-arm64)triplex_1.52.0.tgz(r-4.5-x86_64)triplex_1.52.0.tgz(r-4.5-arm64)
triplex_1.52.0.tar.gz(r-4.7-arm64)triplex_1.52.0.tar.gz(r-4.7-x86_64)triplex_1.52.0.tar.gz(r-4.6-arm64)triplex_1.52.0.tar.gz(r-4.6-x86_64)
triplex_1.52.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
triplex/json (API)
NEWS

# Install 'triplex' in R:
install.packages('triplex', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:triplex-1.53.0(bioc 3.24)triplex-1.52.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

sequencematchinggeneregulation

3.30 score 9 scripts 454 downloads 15 exports 9 dependencies

Last updated from:4feb2c4d52 (on RELEASE_3_23). Checks:12 WARNING, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING199
linux-devel-arm64WARNING245
linux-devel-x86_64WARNING292
source / vignettesOK255
linux-release-arm64WARNING209
linux-release-x86_64WARNING294
macos-release-arm64WARNING214
macos-release-x86_64WARNING422
macos-oldrel-arm64WARNING128
macos-oldrel-x86_64WARNING273
windows-develWARNING218
windows-releaseWARNING256
windows-oldrelWARNING201
wasm-releaseOK155

Exports:inslendlstartlwidthpvaluescoreshowstrandtoStringtriplex.3Dtriplex.alignmenttriplex.diagramtriplex.group.tabletriplex.score.tabletriplex.search

Dependencies:BiocGenericsBiostringscrayongenericsGenomicRangesIRangesS4VectorsSeqinfoXVector

Triplex User Guide

Rendered fromtriplex.Rnwusingutils::Sweaveon May 30 2026.

Last update: 2019-09-18
Started: 2013-04-02

Readme and manuals

Help Manual

Help pageTopics
Triplex search and visualization packagetriplex-package triplex
Insertions accessorins
Loop end accessorlend
Loop start accessorlstart
Loop width accessorlwidth
P-value accessorpvalue
Triplex visualization, 3D representationtriplex.3D
Triplex alignmenttriplex.alignment
Triplex visualization, diagram representationtriplex.diagram
Get default isogroup tablestriplex.group.table
Get default scoring tablestriplex.score.table
Search intramolecular triplex-forming sequences in DNAtriplex.search
The TriplexViews classas.character,TriplexViews-method class:TriplexViews ins,TriplexViews-method lend,TriplexViews-method lstart,TriplexViews-method lwidth,TriplexViews-method pvalue,TriplexViews-method score,TriplexViews-method show,TriplexViews-method strand,TriplexViews-method toString,TriplexViews-method TriplexViews TriplexViews-class TriplexViews-constructor type,TriplexViews-method