immApex
Bioc currentTools for Adaptive Immune Receptor Sequence-Based Machine and Deep Learning
Release Lineage
Entered 3.20 · Oct 30, 2024
Current · Requires R 4.6
Description
A set of tools to for machine and deep learning in R from amino acid and nucleotide sequences focusing on adaptive immune receptors. The package includes pre-processing of sequences, unifying gene nomenclature usage, encoding sequences, and combining models. This package will serve as the basis of future immune receptor sequence functions/packages/models compatible with the scRepertoire ecosystem.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
86 35 exported
Complexity
5.4 avg / 37 max
Call network
86 nodes / 52 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
8,928
Files
125
Compiled share
8.2%
Has compiled src
Yes
Language breakdown
API
Exported functions
36
Internal functions
33
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.71
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
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
4.3.0
System requirements
–
C++ standard
C++17
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
4
First release
2025-02-25
Latest release
2026-04-28
Avg cadence
144 days
Cold removal rate
–
Dep drift
13
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 93%
- Documented parameters
- 98%
- Return-value docs
- 97%
- References docs
- 5%
Topics
Depended on by (4)
Bioconductor (4)
People
- Nick Borcherding author maintainer cph
- Qile Yang contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("immApex")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.