DOI: 10.18129/B9.bioc.DNAfusion  

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

Identification of gene fusions using paired-end sequencing

Bioconductor version: 3.16

Paired-end sequencing of cfDNA generated BAM files can be used as input to discover EML4-ALK variants. 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 clin.au.dk>

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biocViews GeneFusionDetection, Genetics, Sequencing, Software, TargetedResequencing
Version 1.0.0
In Bioconductor since BioC 3.16 (R-4.2) (< 6 months)
License GPL-3
Depends R (>= 4.2.0)
Imports bamsignals, GenomicRanges, IRanges, Rsamtools, GenomicAlignments, BiocBaseUtils, S4Vectors
Suggests knitr, rmarkdown, testthat, sessioninfo, BiocStyle
URL https://github.com/CTrierMaansson/DNAfusion
BugReports https://github.com/CTrierMaansson/DNAfusion/issues
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Source Package DNAfusion_1.0.0.tar.gz
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