TargetSearch
Bioc currentA package for the analysis of GC-MS metabolite profiling data
Release Lineage
Entered 2.4 · Apr 21, 2009
Current · Requires R 4.6
Description
This packages provides a flexible, fast and accurate method for targeted pre-processing of GC-MS data. The user provides a (often very large) set of GC chromatograms and a metabolite library of targets. The package will automatically search those targets in the chromatograms resulting in a data matrix that can be used for further data analysis.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
217 51 exported
Complexity
4.3 avg / 21 max
Call network
217 nodes / 240 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
12,973
Files
149
Compiled share
19.7%
Has compiled src
Yes
Language breakdown
API
Exported functions
51
Internal functions
50
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
35.7%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
35
First release
2009-04-20
Latest release
2026-04-28
Avg cadence
185 days
Cold removal rate
–
Dep drift
15
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 54includes a package overview page
- Examples that run
- 98%50 run in a plain check · 1 never run
- Exported functions with examples
- 98%
- Documented parameters
- 98%
- Return-value docs
- 84%
- Help pages citing references
- 2%
DOCUMENTATION
- Fix typo in
ri_plot_peakman page.
From inst/NEWS in the release
Repository practices
Checks run against github.com/acinostroza/targetsearch on 2026-10-22.
No development-tooling practices detected in the upstream repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| RImatrix | matrix | 3 × 15 | No other package |
| corRI | matrix | 12 × 15 | No other package |
| metabProfile | – | – | – |
| peakData | – | – | – |
| refLibrary | – | – | – |
| rimLimits | – | – | – |
| sampleDescription | – | – | – |
Topics
People
- Alvaro Cuadros-Inostroza author maintainer
- Matt Hannah author
- Jan Lisec author
- Henning Redestig author
Cite
Cite this package
Run in R for the authors' entry:
citation("TargetSearch")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1186/1471-2105-10-428.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.