AWAggregator
Bioc currentAttribute-Weighted Aggregation
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
This package implements an attribute-weighted aggregation algorithm which leverages peptide-spectrum match (PSM) attributes to provide a more accurate estimate of protein abundance compared to conventional aggregation methods. This algorithm employs pre-trained random forest models to predict the quantitative inaccuracy of PSMs based on their attributes. PSMs are then aggregated to the protein level using a weighted average, taking the predicted inaccuracy into account. Additionally, the package allows users to construct their own training sets that are more relevant to their specific experimental conditions if desired.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
7 7 exported
Complexity
7.1 avg / 11 max
Call network
7 nodes / 1 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
1,795
Files
32
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
0
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.15
testthat edition
3
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
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
2
First release
2025-10-29
Latest release
2026-04-28
Avg cadence
181 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
- Help pages
- 10
- Examples that run
- 100%7 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 98%
- Return-value docs
- 100%
- Help pages citing references
- 10%
Repository practices
Checks run against github.com/tan-jiahua/awaggregator on 2026-10-18.
No development-tooling practices detected in the upstream repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| sample.PSM.FP | data.frame | 118 × 20 | No other package |
| sample.PSM.PD | data.frame | 128 × 21 | No other package |
| sample.prot.PD | data.frame | 5 × 2 | No other package |
Topics
People
- Jiahua Tan author maintainer
- David D. Y. Chen author
- Gregg B. Morin author
- Gian L. Negri author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("AWAggregator")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.