igblastr
Bioc currentUser-friendly R Wrapper to IgBLAST
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
The igblastr package provides functions to conveniently install and use a local IgBLAST installation from within R. The package also includes a set of built-in IgBLAST-compatible germline databases from OGRDB, the AIRR Community’s Open Germline Receptor Database, for various organisms. It provides functions to create additional IgBLAST-compatible germline databases using reference sequences retrieved from IMGT/V-QUEST or local FASTA files supplied by the user. When possible, annotations for the V and J alleles in a new germline database are automatically generated and added to the database, so they can be used as replacements for the internal and auxiliary data provided by IgBLAST. IgBLAST is described at <https://pubmed.ncbi.nlm.nih.gov/23671333/>. IgBLAST web interface: <https://www.ncbi.nlm.nih.gov/igblast/>. OGRDB: <https://ogrdb.airr-community.org/>. IMGT/V-QUEST download site: <https://www.imgt.org/download/V-QUEST/>.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
644 112 exported
Complexity
2.7 avg / 15 max
Call network
644 nodes / 1210 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
23,176
Files
571
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
115
Internal functions
491
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.15
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
37.5%
Unsafe pattern score
2
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
2
First release
2026-03-16
Latest release
2026-07-13
Avg cadence
119 days
Cold removal rate
100%
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
- 95%
- Return-value docs
- 97%
- References docs
- 3%
Topics
People
- Hervé Pagès author maintainer
- Michael Duff contributor
- Ollivier Hyrien author fnd
- Kellie MacPhee contributor
- Jason Taylor contributor