R Observatory: Metrics for spatialSimGP version 1.6.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

spatialSimGP

Bioc current

Simulate Spatial Transcriptomics Data with the Mean-variance Relationship

v1.6.0 · software · MIT + file LICENSE

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.20 · Oct 30, 2024

Current · Requires R 4.6

1.0 In 4 of 49 releases 3.23

Description

This packages simulates spatial transcriptomics data with the mean- variance relationship using a Gaussian Process model per gene.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

1 1 exported

Complexity

16 avg / 16 max

Call network

1 nodes / 0 edges

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

Call graph

Open call graph →

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Lowest coverage

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

Code

Structure

Lines of code

544

Files

13

Compiled share

0%

Has compiled src

No

Language breakdown

R 176 (32.4%)Tests 22 (4%)Docs 76 (14%)Vignettes 270 (49.6%)

API

Exported functions

1

Internal functions

0

Recent export changes

v3.20+1 spatial_simulate

Testing & CI

Has tests

Yes

Test-to-code ratio

0.13

testthat edition

3

CI present

No

CI type

[]

PR gated

No

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

4.4

System requirements

–

C++ standard

–

License

MIT + file LICENSE

License flags

SPDX valid, OSI approved

History

Versions

4

First release

2024-10-29

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

READMEYes · 722 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Topics

Software › Technology › Spatial

Software › ResearchField › Transcriptomics

Software › AssayDomain › GeneExpression

People

Kinnary Shah author maintainer
Boyi Guo author
Stephanie C. Hicks author

At a glance

Version: 1.6.0
Category: software
License: MIT + file LICENSE
Requires R: ≥ 4.6
Maintainer: Kinnary Shah
Entered: 3.20 · Oct 30, 2024
Current: 3.23 · Apr 29, 2026

Available on

CRAN r2u Bioconductor autoCRAN COPR

Dependencies

Depends

R (>= 4.4)

Imports

SpatialExperimentBiocMASSSummarizedExperimentBioc

Suggests

testthat (>= 3.0.0)STexampleDataBiocggplot2 knitr

Source & history

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("spatialSimGP")

Format

Shah, K., Guo, B., & Hicks, S. C. (2026). spatialSimGP: Simulate Spatial Transcriptomics Data with the Mean-variance Relationship (Version 1.6.0) [Computer software]. https://bioconductor.org/packages/spatialSimGP

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.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for spatialSimGP version 1.6.0 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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