DNAfusion
Identification of gene fusions using paired-end sequencing
Bioconductor version: 3.24 · Package version: 1.15.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DNAfusion")Details
| Maintainer | Christoffer Trier Maansson <ctm@clin.au.dk> |
| Author | Christoffer Trier Maansson [aut, cre] (ORCID: <https://orcid.org/0000-0002-3071-3437>), Emma Roger Andersen [ctb, rev], Maiken Parm Ulhoi [dtc], Peter Meldgaard [dtc], Boe Sandahl Sorensen [rev, fnd] |
| License | GPL-3 |
| URL | https://github.com/CTrierMaansson/DNAfusion |
| Bug Reports | https://github.com/CTrierMaansson/DNAfusion/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneFusionDetection, Genetics, Sequencing, Software, TargetedResequencing |
| Package Short Url | https://bioconductor.org/packages/DNAfusion/ |
Citation
From within R, enter citation("DNAfusion"):
Christoffer Trier Maansson. DNAfusion: Identification of gene fusions using paired-end sequencing. doi:10.18129/B9.bioc.DNAfusion, R package version 1.15.0, https://bioconductor.org/packages/DNAfusion.
Generated from the package metadata; it may differ from the package's own citation.
Download
Follow the installation instructions to use this package in your R session.
| Source package | DNAfusion_1.15.0.tar.gz |
| Windows binary (x86_64) | DNAfusion_1.15.0.zip |
| macOS binary (arm64) | DNAfusion_1.15.0.tgz |
| macOS binary (x86_64) | DNAfusion_1.15.0.tgz |
Dependencies
Depends: R (>= 4.4.0)
Imports: GenomicRanges, IRanges, Rsamtools, GenomicAlignments, BiocBaseUtils, S4Vectors, GenomicFeatures, TxDb.Hsapiens.UCSC.hg38.knownGene, BiocGenerics
Suggests: knitr, rmarkdown, testthat, sessioninfo, BiocStyle