DOI: 10.18129/B9.bioc.packFinder  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see packFinder.

de novo Annotation of Pack-TYPE Transposable Elements

Bioconductor version: 3.16

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>

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


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biocViews Annotation, Genetics, SequenceMatching, Software
Version 1.10.0
In Bioconductor since BioC 3.11 (R-4.0) (3 years)
License GPL-2
Depends R (>= 4.1.0)
Imports Biostrings, GenomicRanges, kmer, ape, methods, IRanges, S4Vectors
Suggests biomartr, knitr, rmarkdown, testthat, dendextend, biocViews, BiocCheck, BiocStyle
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