tRNAscanImport

This is the released version of tRNAscanImport; for the devel version, see tRNAscanImport.

All versions

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, 3.8, 3.7

Importing a tRNAscan-SE result file as GRanges object

Bioconductor version: Release (3.23)

The package imports the result of tRNAscan-SE as a GRanges object.

Author: Felix G.M. Ernst [aut, cre] ORCID: 0000-0001-5064-0928

Maintainer: Felix G.M. Ernst <felix.gm.ernst at outlook.com>

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

Felix G.M. Ernst. tRNAscanImport: Importing a tRNAscan-SE result file as GRanges object. doi:10.18129/B9.bioc.tRNAscanImport, R package version 1.32.0, https://bioconductor.org/packages/tRNAscanImport.

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")

BiocManager::install("tRNAscanImport")

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

Documentation

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

browseVignettes("tRNAscanImport")

Importing tRNAscan-SE output as GRanges	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, Preprocessing, Software, Visualization, WorkflowStep
Version	1.32.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 years)
License	GPL-3 + file LICENSE
Depends	R (>= 3.5), GenomicRanges, tRNA
Imports	methods, stringr, BiocGenerics, Biostrings, Structstrings, S4Vectors, IRanges, XVector, Seqinfo, rtracklayer, BSgenome, Rsamtools
System Requirements
URL	https://github.com/FelixErnst/tRNAscanImport
Bug Reports	https://github.com/FelixErnst/tRNAscanImport/issues

Suggests	BiocStyle, knitr, rmarkdown, testthat, ggplot2, BSgenome.Scerevisiae.UCSC.sacCer3
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	Structstrings, tRNA
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	tRNAscanImport_1.32.0.tar.gz
Windows Binary (x86_64)	tRNAscanImport_1.32.0.zip
macOS Binary (big-sur-x86_64)	tRNAscanImport_1.32.0.tgz
macOS Binary (sonoma-arm64)	tRNAscanImport_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/tRNAscanImport
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/tRNAscanImport
Package Short Url	https://bioconductor.org/packages/tRNAscanImport/
Package Downloads Report	Download Stats