awst
Bioc currentAsymmetric Within-Sample Transformation
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
We propose an Asymmetric Within-Sample Transformation (AWST) to regularize RNA-seq read counts and reduce the effect of noise on the classification of samples. AWST comprises two main steps: standardization and smoothing. These steps transform gene expression data to reduce the noise of the lowly expressed features, which suffer from background effects and low signal-to-noise ratio, and the influence of the highly expressed features, which may be the result of amplification bias and other experimental artifacts.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
6 0 exported
Complexity
1.7 avg / 2 max
Call network
6 nodes / 2 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
770
Files
13
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
2
Internal functions
6
Testing
Has tests
Yes
Test-to-code ratio
0.31
testthat edition
–
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
–
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-05-19
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
- Help pages
- 2
- Examples that run
- 100%2 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 50%
- Return-value docs
- 100%
- Help pages citing references
- 100%
- Introduction to awst HTML
Repository practices
4 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/drisso/awst on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
Topics
People
- Davide Risso author maintainer copyright holder
- Stefano Pagnotta author copyright holder
Cite
Cite this package
Run in R for the authors' entry:
citation("awst")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/bioinformatics/btab091.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.