xCell2
Bioc currentA Tool for Generic Cell Type Enrichment Analysis
Release Lineage
Entered 3.21 · Apr 16, 2025
Current · Requires R 4.6
Description
xCell2 provides methods for cell type enrichment analysis using cell type signatures. It includes three main functions - 1. xCell2Train for training custom references objects from bulk or single-cell RNA-seq datasets. 2. xCell2Analysis for conducting the cell type enrichment analysis using the custom reference. 3. xCell2GetLineage for identifying dependencies between different cell types using ontology.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
12 3 exported
Complexity
7.1 avg / 18 max
Call network
12 nodes / 11 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
4,045
Files
57
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
13
Internal functions
9
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.16
testthat edition
–
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
4.0.0
System requirements
–
C++ standard
–
License
GPL (>= 3)
License flags
SPDX valid, OSI approved
History
Versions
3
First release
2025-10-06
Latest release
2026-04-28
Avg cadence
102 days
Cold removal rate
–
Dep drift
1
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
- 100%
- Return-value docs
- 100%
- References docs
- 5%
Topics
Depended on by (1)
Bioconductor (1)
People
- Almog Angel author maintainer
- Dvir Aran author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("xCell2")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 v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.