canceR
Bioc currentA Graphical User Interface for accessing and modeling the Cancer Genomics Data of MSKCC
Release Lineage
Entered 3.1 · Apr 17, 2015
Current · Requires R 4.6
Description
The package is user friendly interface based on the cgdsr and other modeling packages to explore, compare, and analyse all available Cancer Data (Clinical data, Gene Mutation, Gene Methylation, Gene Expression, Protein Phosphorylation, Copy Number Alteration) hosted by the Computational Biology Center at Memorial-Sloan-Kettering Cancer Center (MSKCC).
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
86 60 exported
Complexity
10.4 avg / 155 max
Call network
86 nodes / 128 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
14,255
Files
296
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
62
Internal functions
31
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
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.3
System requirements
2 externalTktable, BWidget
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
23
First release
2015-04-16
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
17
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 85
- Examples that run
- 77%64 run in a plain check · 19 never run
- Exported functions with examples
- 97%
- Documented parameters
- 100%
- Return-value docs
- 97%
- Help pages citing references
- 1%
Repository practices
2 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/kmezhoud/cancer on 2026-10-22.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| 102 | data.frame | 101 × 1 | 2 packages |
| 1021 | data.frame | 1,020 × 1 | 2 packages |
| 223 | data.frame | 221 × 1 | No other package |
| 73 | data.frame | 72 × 1 | 2 packages |
| Circos | vector | 7 elements | No other package |
| DNA_damage_Response | data.frame | 11 × 1 | 2 packages |
| Glioblastoma_RTK_Ras_PI3K_AKT_Signaling | data.frame | 16 × 1 | No other package |
| INvasion_and_Metastasis | data.frame | 26 × 1 | 2 packages |
| ProstateCancer_AR_and_Steroid_synthesis_enzymes | data.frame | 29 × 1 | 2 packages |
| ProstateCancer_DownRegulated_by_Androgen | data.frame | 18 × 1 | 2 packages |
| brca_tcga73genes | vector | 32 elements | No other package |
| brca_tcgaClassifier223 | vector | 10 elements | No other package |
| brca_tcgaGSEAlm1021 | vector | 32 elements | No other package |
| gbm_tcgaPlotTwoGenProf | vector | 7 elements | No other package |
| prad_michPhenoTest1021 | vector | 12 elements | No other package |
| ucec_tcga_pubGSEA1021 | vector | 44 elements | No other package |
Topics
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("canceR")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.