ADaCGH2
Bioc currentAnalysis of Big Data from aCGH Experiments using Parallel Computing and ff Objects
Release Lineage
Entered 2.7 · Oct 18, 2010
Current · Requires R 4.6
Description
Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.
Code
Structure
Lines of code
12,085
Files
52
Compiled share
4.8%
Has compiled src
Yes
Language breakdown
API
Exported functions
10
Internal functions
116
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
25
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.2.0
System requirements
–
C++ standard
–
License
GPL (>= 3)
License flags
SPDX valid, OSI approved
History
Versions
32
First release
2010-10-18
Latest release
2026-04-28
Avg cadence
183 days
Cold removal rate
100%
Dep drift
9
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Topics
People
- Ramon Diaz-Uriarte author maintainer
- Erez Ben-Yaacov contributor
- Douglas Grove contributor
- Li Hsu contributor
- Barry Rowlingson contributor
- Oscar M. Rueda author
- Jan Wijffels contributor
- Edwin de Jonge contributor
- Jan van der Laan contributor