PCAN
Bioc currentPhenotype Consensus ANalysis (PCAN)
Release Lineage
Entered 3.3 · May 4, 2016
Current · Requires R 4.6
Description
Phenotypes comparison based on a pathway consensus approach. Assess the relationship between candidate genes and a set of phenotypes based on additional genes related to the candidate (e.g. Pathways or network neighbors).
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
7 7 exported
Complexity
5 avg / 12 max
Call network
7 nodes / 1 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
3,070
Files
69
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
0
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.3
System requirements
–
C++ standard
–
License
CC BY-NC-ND 4.0
License flags
not SPDX, not OSI
History
Versions
21
First release
2016-05-15
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
- 19
- Examples that run
- 84%16 run in a plain check · 3 never run
- Exported functions with examples
- 100%
- Documented parameters
- 98%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| geneByHp | data.frame | 67,989 × 2 | No other package |
| geneByTrait | data.frame | 4,569 × 3 | No other package |
| geneDef | data.frame | 3,265 × 3 | No other package |
| hpByTrait | data.frame | 55,311 × 3 | No other package |
| hpDef | data.frame | 10,962 × 2 | No other package |
| hp_ancestors | list | 10,962 elements | No other package |
| hp_class | list | 10,962 elements | No other package |
| hp_descendants | list | 10,962 elements | No other package |
| hqStrNw | data.frame | 643,683 × 3 | No other package |
| hsEntrezByRPath | list | 1,345 elements | No other package |
| rPath | data.frame | 1,345 × 2 | No other package |
| traitDef | data.frame | 3,675 × 3 | No other package |
Topics
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' entry:
citation("PCAN")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1186/s12859-016-1401-2.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.