Registration Open for Bioc2024 July 24-26


This is the development version of RgnTX; for the stable release version, see RgnTX.

Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and ambiguity

Bioconductor version: Development (3.20)

RgnTX allows the integration of transcriptome annotations so as to model the complex alternative splicing patterns. It supports the testing of transcriptome elements without clear isoform association, which is often the real scenario due to technical limitations. It involves functions that do permutaion test for evaluating association between features and transcriptome regions.

Author: Yue Wang [aut, cre], Jia Meng [aut]

Maintainer: Yue Wang <yue.wang19 at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

RgnTX HTML R Script
Reference Manual PDF


biocViews AlternativeSplicing, MethylSeq, RNASeq, Sequencing, Software, SplicedAlignment, Transcription
Version 1.7.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License Artistic-2.0
Depends R (>= 4.2.0)
Imports GenomeInfoDb, GenomicFeatures, GenomicRanges, ggplot2, graphics, IRanges, methods, regioneR, S4Vectors, stats, TxDb.Hsapiens.UCSC.hg19.knownGene
System Requirements
See More
Suggests BiocStyle, rmarkdown, knitr, testthat (>= 3.0.0)
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package RgnTX_1.7.0.tar.gz
Windows Binary
macOS Binary (x86_64) RgnTX_1.7.0.tgz
macOS Binary (arm64) RgnTX_1.7.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Bioc Package Browser
Package Short Url
Package Downloads Report Download Stats