miRSM
Bioc currentInferring miRNA sponge modules in heterogeneous data
Release Lineage
Entered 3.8 · Oct 31, 2018
Current · Requires R 4.6
Description
The package aims to identify miRNA sponge or ceRNA modules in heterogeneous data. It provides several functions to study miRNA sponge modules at single-sample and multi-sample levels, including popular methods for inferring gene modules (candidate miRNA sponge or ceRNA modules), and two functions to identify miRNA sponge modules at single-sample and multi-sample levels, as well as several functions to conduct modular analysis of miRNA sponge modules.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
78 20 exported
Complexity
8.3 avg / 39 max
Call network
78 nodes / 59 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
11,668
Files
61
Compiled share
29.7%
Has compiled src
Yes
Language breakdown
API
Exported functions
20
Internal functions
34
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
25%
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
16
First release
2018-10-30
Latest release
2026-09-05
Avg cadence
182 days
Cold removal rate
–
Dep drift
26
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 25
- Examples that run
- 95%19 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 56%
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/zhangjunpeng411/mirsm on 2026-10-21.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| BRCA_genes | – | – | – |
| Groundtruth_high | data.frame | 3,728 × 2 | No other package |
| ceRExp | – | – | – |
| mRExp | – | – | – |
| miRExp | – | – | – |
| miRTarget | – | – | – |
Topics
People
- Junpeng Zhang author maintainer
Cite
Cite this package
Run in R for the authors' entry:
citation("miRSM")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1080/15476286.2021.1905341, 10.1016/j.xpro.2024.103317.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.