DOI: 10.18129/B9.bioc.RgnTX  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see RgnTX.

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

Bioconductor version: 3.17

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 student.xjtlu.edu.cn>

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biocViews AlternativeSplicing, MethylSeq, RNASeq, Sequencing, Software, SplicedAlignment, Transcription
Version 1.2.0
In Bioconductor since BioC 3.16 (R-4.2) (1 year)
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
Suggests BiocStyle, rmarkdown, knitr, testthat (>= 3.0.0)
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Source Package RgnTX_1.2.0.tar.gz
Windows Binary RgnTX_1.2.0.zip (64-bit only)
macOS Binary (x86_64) RgnTX_1.2.0.tgz
macOS Binary (arm64) RgnTX_1.2.0.tgz
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/RgnTX
Bioc Package Browser https://code.bioconductor.org/browse/RgnTX/
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