PADOG
Bioc currentPathway Analysis with Down-weighting of Overlapping Genes (PADOG)
Release Lineage
Entered 2.11 · Oct 3, 2012
Current · Requires R 4.6
Description
This package implements a general purpose gene set analysis method called PADOG that downplays the importance of genes that apear often accross the sets of genes to be analyzed. The package provides also a benchmark for gene set analysis methods in terms of sensitivity and ranking using 24 public datasets from KEGGdzPathwaysGEO package.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
3 3 exported
Complexity
21 avg / 37 max
Call network
3 nodes / 3 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
1,482
Files
14
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
3
Internal functions
1
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
66.7%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
100%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.0.0
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
28
First release
2012-10-01
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
5
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
- 100%
Topics
Depended on by (3)
CRAN (1)
People
Adi L. Tarca