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anndataR

Bioc current

AnnData interoperability in R

v1.2.0 · software · MIT + file LICENSE
View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.22 · Oct 30, 2025

Current · Requires R 4.6

1.0 In 2 of 49 releases 3.23

Description

Bring the power and flexibility of AnnData to the R ecosystem, allowing you to effortlessly manipulate and analyse your single-cell data. This package lets you work with backed h5ad and zarr files, directly access various slots (e.g. X, obs, var), or convert the data into SingleCellExperiment and Seurat objects.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

197 8 exported

Complexity

3 avg / 21 max

Call network

197 nodes / 188 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

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Lowest coverage

Per-function coverage is not measured for this package yet.

Code

Structure

Lines of code

21,848

Files

167

Compiled share

0%

Has compiled src

No

Language breakdown

R 10,777 (49.3%)Tests 6,593 (30.2%)Docs 3,286 (15%)Vignettes 1,192 (5.5%)

API

Exported functions

9

Internal functions

186

Recent export changes

v3.23+2 read_zarr, write_zarr
v3.22+7 AnnData, AnnDataView, as_AnnData +4 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.61

testthat edition

3

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Return-value doc rate

100%

\dontrun example ratio

13.3%

Roxygen coverage

100%

Has pkgdown

Yes

NEWS present

Yes

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

0%

Unsafe pattern score

0

Dep constraint coverage

22.2%

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

2026-03-02

Latest release

2026-04-28

Avg cadence

57 days

Cold removal rate

–

Dep drift

0

LOC over versions

v3.22: 16,724 LOCv3.23: 21,848 LOC

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Topics

Software › Technology › SingleCell
Software › Infrastructure › DataImport
Software › Infrastructure › DataRepresentation

Depended on by (6)

Bioconductor (5)

HistoImagePlot imageFeatureTCGA imageTCGAutils cellNexus OSTA

CRAN (1)

dyngen

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