target
Bioc currentPredict Combined Function of Transcription Factors
Release Lineage
Entered 3.10 · Oct 30, 2019
Current · Requires R 4.6
Description
Implement the BETA algorithm for infering direct target genes from DNA-binding and perturbation expression data Wang et al. (2013) <doi: 10.1038/nprot.2013.150>. Extend the algorithm to predict the combined function of two DNA-binding elements from comprable binding and expression data.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 10 exported
Complexity
4.2 avg / 8 max
Call network
10 nodes / 8 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
1,719
Files
42
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
10
Internal functions
0
Testing
Has tests
Yes
Test-to-code ratio
0.24
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.6
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
14
First release
2019-10-29
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 15includes a package overview page
- Examples that run
- 100%13 run in a plain check
- Exported functions with examples
- 90%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
4 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/mahshaaban/target on 2026-10-18.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| AR_diff_expr | data.frame | 34,859 × 7 | No other package |
| real_peaks | – | – | – |
| real_transcripts | – | – | – |
| sim_peaks | – | – | – |
| sim_transcripts | – | – | – |
Topics
People
- Mahmoud Ahmed author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
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