DNAfusion
Bioc currentIdentification of gene fusions using paired-end sequencing
Release Lineage
Entered 3.16 · Nov 2, 2022
Current · Requires R 4.6
Description
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.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 8 exported
Complexity
7.2 avg / 12 max
Call network
10 nodes / 14 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
1,629
Files
27
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
8
Internal functions
2
Testing & CI
Has tests
Yes
Test-to-code ratio
0.15
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
8
First release
2022-11-01
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
–
Dep drift
4
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- Christoffer Trier Maansson author maintainer
- Emma Roger Andersen contributor rev
- Peter Meldgaard dtc
- Boe Sandahl Sorensen rev fnd
- Maiken Parm Ulhoi dtc
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("DNAfusion")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.