abseqR
Bioc currentReporting and data analysis functionalities for Rep-Seq datasets of antibody libraries
Release Lineage
Entered 3.8 · Oct 31, 2018
Current · Requires R 4.6
Description
AbSeq is a comprehensive bioinformatic pipeline for the analysis of sequencing datasets generated from antibody libraries and abseqR is one of its packages. abseqR empowers the users of abseqPy (https://github.com/malhamdoosh/abseqPy) with plotting and reporting capabilities and allows them to generate interactive HTML reports for the convenience of viewing and sharing with other researchers. Additionally, abseqR extends abseqPy to compare multiple repertoire analyses and perform further downstream analysis on its output.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
79 1 exported
Complexity
3.4 avg / 22 max
Call network
79 nodes / 126 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
9,441
Files
439
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
2
Internal functions
61
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.03
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
4%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
1 externalpandoc (>= 1.19.2.1)
C++ standard
–
License
GPL-3 | file LICENSE
License flags
SPDX valid, not OSI
History
Versions
16
First release
2018-10-30
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.
Documentation
- Help pages
- 85
- Examples that run
- 100%8 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/malhamdoosh/abseqr on 2026-10-18.
Topics
People
- JiaHong Fong maintainer author
- Monther Alhamdoosh author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("abseqR")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.
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