martini
Bioc currentGWAS Incorporating Networks
Release Lineage
Entered 3.7 · May 1, 2018
Current · Requires R 4.6
Description
martini deals with the low power inherent to GWAS studies by using prior knowledge represented as a network. SNPs are the vertices of the network, and the edges represent biological relationships between them (genomic adjacency, belonging to the same gene, physical interaction between protein products). The network is scanned using SConES, which looks for groups of SNPs maximally associated with the phenotype, that form a close subnetwork.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
81 16 exported
Complexity
2.2 avg / 11 max
Call network
81 nodes / 81 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
6,615
Files
132
Compiled share
27.8%
Has compiled src
Yes
Language breakdown
API
Exported functions
16
Internal functions
29
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.76
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
62.5%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
17
First release
2018-04-30
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 50 (26 internal)
- Examples that run
- 79%22 run in a plain check · 6 never run
- Exported functions with examples
- 94%
- Documented parameters
- 97%
- Return-value docs
- 100%
- Help pages citing references
- 20%
Repository practices
4 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/hclimente/martini on 2026-10-22.
The R CMD check workflow runs on Linux, macOS and Windows
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| minigwas | list | 3 elements | No other package |
| minippi | data.frame | 3 × 2 | No other package |
| minisnpMapping | data.frame | 21 × 2 | No other package |
Topics
People
- Hector Climente-Gonzalez author maintainer
- Chloe-Agathe Azencott author
Cite
Cite this package
Run in R for the authors' entry:
citation("martini")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1101/2021.01.25.428047.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.