proBatch
Bioc currentTools for Diagnostics and Corrections of Batch Effects in Proteomics
Release Lineage
Entered 3.9 · May 3, 2019
Current · Requires R 4.6
Description
These tools facilitate batch effects analysis and correction in high-throughput experiments. It was developed primarily for mass-spectrometry proteomics (DIA/SWATH), but could also be applicable to most omic data with minor adaptations. The package contains functions for diagnostics (proteome/genome-wide and feature-level), correction (normalization and batch effects correction) and quality control. Non-linear fitting based approaches were also included to deal with complex, mass spectrometry-specific signal drifts.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
185 86 exported
Complexity
5.5 avg / 34 max
Call network
185 nodes / 282 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
21,145
Files
133
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
86
Internal functions
98
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.34
testthat edition
3
CI present
No
CI type
[]
PR gated
No
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
4.5.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2019-05-02
Latest release
2026-04-28
Avg cadence
182 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.
Documentation
- Examples that run
- 98%
- Documented parameters
- 95%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- Yuliya Burankova maintainer
- Jelena Cuklina author
- Chloe H. Lee author
- Patrick Pedrioli author
- Olga Zolotareva author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("proBatch")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.