HarmonizR
Bioc currentHandles missing values and makes more data available
Release Lineage
Entered 3.18 · Oct 25, 2023
Current · Requires R 4.6
Description
An implementation, which takes input data and makes it available for proper batch effect removal by ComBat or Limma. The implementation appropriately handles missing values by dissecting the input matrix into smaller matrices with sufficient data to feed the ComBat or limma algorithm. The adjusted data is returned to the user as a rebuild matrix. The implementation is meant to make as much data available as possible with minimal data loss.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
21 1 exported
Complexity
10.1 avg / 88 max
Call network
21 nodes / 19 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
2,980
Files
53
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
1
Internal functions
20
Testing & CI
Has tests
Yes
Test-to-code ratio
0.16
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
87.5%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.2.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
6
First release
2023-10-24
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
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- Simon Schlumbohm author maintainer
- Julia Neumann author
- Philipp Neumann author