OUTRIDER
Bioc currentOUTRIDER - OUTlier in RNA-Seq fInDER
Release Lineage
Entered 3.8 · Oct 31, 2018
Current · Requires R 4.6
Description
Identification of aberrant gene expression in RNA-seq data. Read count expectations are modeled by an autoencoder to control for confounders in the data. Given these expectations, the RNA-seq read counts are assumed to follow a negative binomial distribution with a gene-specific dispersion. Outliers are then identified as read counts that significantly deviate from this distribution. Furthermore, OUTRIDER provides useful plotting functions to analyze and visualize the results.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
143 22 exported
Complexity
3.6 avg / 28 max
Call network
143 nodes / 180 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
8,549
Files
83
Compiled share
3.2%
Has compiled src
Yes
Language breakdown
API
Exported functions
43
Internal functions
97
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.15
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
95.3%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
3.1%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.6
System requirements
–
C++ standard
–
License
file LICENSE
License flags
SPDX valid, not OSI
History
Versions
16
First release
2019-03-18
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
15
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
- 87%
- Return-value docs
- 94%
- References docs
- 0%
Topics
Depended on by (1)
Bioconductor (1)
People
- Christian Mertes author maintainer
- Felix Brechtmann author
- Julien Gagneur author
- Agne Matuseviciute author
- Michaela Fee Müller contributor
- Andrea Raithel contributor
- Vicente Yepez author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("OUTRIDER")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 v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.