Welcome to the new bioconductor.org!


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

de novo Annotation of Pack-TYPE Transposable Elements

Bioconductor version: Development (3.19)

Algorithm and tools for in silico pack-TYPE transposon discovery. Filters a given genome for properties unique to DNA transposons and provides tools for the investigation of returned matches. Sequences are input in DNAString format, and ranges are returned as a dataframe (in the format returned by as.dataframe(GRanges)).

Author: Jack Gisby [aut, cre] , Marco Catoni [aut]

Maintainer: Jack Gisby <jackgisby at gmail.com>

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


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:

packFinder HTML R Script
Reference Manual PDF


biocViews Annotation, Genetics, SequenceMatching, Software
Version 1.15.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License GPL-2
Depends R (>= 4.1.0)
Imports Biostrings, GenomicRanges, kmer, ape, methods, IRanges, S4Vectors
System Requirements
URL https://github.com/jackgisby/packFinder
Bug Reports https://github.com/jackgisby/packFinder/issues
See More
Suggests biomartr, knitr, rmarkdown, testthat, dendextend, biocViews, BiocCheck, BiocStyle
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 packFinder_1.15.0.tar.gz
Windows Binary packFinder_1.15.0.zip
macOS Binary (x86_64) packFinder_1.15.0.tgz
macOS Binary (arm64) packFinder_1.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/packFinder
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/packFinder
Bioc Package Browser https://code.bioconductor.org/browse/packFinder/
Package Short Url https://bioconductor.org/packages/packFinder/
Package Downloads Report Download Stats