MerfishData
Bioc currentCollection of public MERFISH datasets
Release Lineage
Entered 3.16 · Nov 2, 2022
Current · Requires R 4.6
Description
MerfishData is an ExperimentHub package that serves publicly available datasets obtained with Multiplexed Error-Robust Fluorescence in situ Hybridization (MERFISH). MERFISH is a massively multiplexed single-molecule imaging technology capable of simultaneously measuring the copy number and spatial distribution of hundreds to tens of thousands of RNA species in individual cells. The scope of the package is to provide MERFISH data for benchmarking and analysis.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
16 7 exported
Complexity
3.2 avg / 18 max
Call network
16 nodes / 18 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
1,888
Files
27
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
9
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.23
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
4.2.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
8
First release
2022-11-01
Latest release
2026-05-01
Avg cadence
184 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 8includes a package overview page
- Examples that run
- 100%7 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 38%
- Mouse colon ibd HTML
- Mouse hypothalamus HTML
- Mouse ileum HTML
Repository practices
Checks run against github.com/ccb-hms/merfishdata on 2026-10-18.
No development-tooling practices detected in the upstream repository.
Datasets
Topics
Suggested by (1)
People
- Ludwig Geistlinger author maintainer
- Daniela Corbetta contributor
- Helena Crowell contributor
- Robert Gentleman author
- Tyrone Lee contributor
- Jeffrey Moffitt author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MerfishData")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.