SplicingGraphs
Bioc currentCreate, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Release Lineage
Entered 2.12 · Apr 4, 2013
Current · Requires R 4.6
Description
This package allows the user to create, manipulate, and visualize splicing graphs and their bubbles based on a gene model for a given organism. Additionally it allows the user to assign RNA-seq reads to the edges of a set of splicing graphs, and to summarize them in different ways.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
88 9 exported
Complexity
3.5 avg / 26 max
Call network
88 nodes / 60 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
6,282
Files
50
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
30
Internal functions
79
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
96.7%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
40%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
27
First release
2013-06-05
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
8
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 13includes a package overview page
- Examples that run
- 100%13 run in a plain check (1 of them under a condition)
- Exported functions with examples
- 100%
- Documented parameters
- 92%
- Return-value docs
- 82%
- Help pages citing references
- 15%
Repository practices
Checks run against github.com/bioconductor/splicinggraphs on 2026-10-21.
No development-tooling practices detected in the upstream repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| ASpatterns | data.frame | 50 × 2 | No other package |
| TSPCsg | – | – | – |
| toy_overlaps | data.frame | 67 × 3 | No other package |
Topics
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("SplicingGraphs")Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.