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

Identification of gene fusions using paired-end sequencing

Bioconductor version: Development (3.20)

DNAfusion can identify gene fusions such as EML4-ALK based on paired-end sequencing results. This package was developed using position deduplicated BAM files generated with the AVENIO Oncology Analysis Software. These files are made using the AVENIO ctDNA surveillance kit and Illumina Nextseq 500 sequencing. This is a targeted hybridization NGS approach and includes ALK-specific but not EML4-specific probes.

Author: Christoffer Trier Maansson [aut, cre] , Emma Roger Andersen [ctb, rev], Maiken Parm Ulhoi [dtc], Peter Meldgaard [dtc], Boe Sandahl Sorensen [rev, fnd]

Maintainer: Christoffer Trier Maansson <ctm at>

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


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:

Introduction to DNAfusion HTML R Script
Reference Manual PDF


biocViews GeneFusionDetection, Genetics, Sequencing, Software, TargetedResequencing
Version 1.7.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License GPL-3
Depends R (>= 4.2.0)
Imports bamsignals, GenomicRanges, IRanges, Rsamtools, GenomicAlignments, BiocBaseUtils, S4Vectors, GenomicFeatures, TxDb.Hsapiens.UCSC.hg38.knownGene, BiocGenerics
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Source Package DNAfusion_1.7.0.tar.gz
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