NewWave
Bioc currentNegative binomial model for scRNA-seq
Release Lineage
Entered 3.12 · Oct 28, 2020
Current · Requires R 4.6
Description
A model designed for dimensionality reduction and batch effect removal for scRNA-seq data. It is designed to be massively parallelizable using shared objects that prevent memory duplication, and it can be used with different mini-batch approaches in order to reduce time consumption. It assumes a negative binomial distribution for the data with a dispersion parameter that can be both commonwise across gene both genewise.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
15 1 exported
Complexity
4.9 avg / 27 max
Call network
15 nodes / 11 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
4,701
Files
52
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
28
Internal functions
14
Testing
Has tests
Yes
Test-to-code ratio
0.10
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
4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
12
First release
2020-12-21
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
- 35 (6 internal)
- Examples that run
- 100%28 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
- vignette HTML
Repository practices
5 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/fedeago/newwave on 2026-10-18.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2025-08-25 · The repository has a site deploy workflow
Topics
People
- Federico Agostinis author maintainer
- Davide Risso author
- Chiara Romualdi author
- Gabriele Sales author
Cite
Cite this package
Run in R for the authors' preferred citation:
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Cite the R Observatory
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