GeoDiff
Bioc currentCount model based differential expression and normalization on GeoMx RNA data
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
A series of statistical models using count generating distributions for background modelling, feature and sample QC, normalization and differential expression analysis on GeoMx RNA data. The application of these methods are demonstrated by example data analysis vignette.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
48 0 exported
Complexity
1.9 avg / 15 max
Call network
48 nodes / 22 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
9,865
Files
86
Compiled share
14.5%
Has compiled src
Yes
Language breakdown
API
Exported functions
0
Internal functions
20
Testing & CI
Has tests
Yes
Test-to-code ratio
0.64
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
No
Docs
Roxygen coverage
–
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
7.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1.0
System requirements
–
C++ standard
C++11
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2021-10-26
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.
Topics
People
- Maddy Griswold maintainer
- Lei Yang author
- Zhi Yang author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("GeoDiff")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 v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.