R Observatory: Metrics for AbSolution version 1.0.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

AbSolution

1.0.2

Interactive Feature-Based Analysis of AIRR-Seq Data

0packages depend

3.1Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Rodrigo García-ValienteCRAN page ↗GitHub ↗Website ↗Issues ↗

An interactive framework for the exploration and analysis of adaptive immune receptor repertoire sequencing (AIRR-seq) data. It enables large-scale computation and integrated analysis of sequence-derived features, including physicochemical properties, amino acid descriptor sets, sequence motifs, compositional patterns, and somatic hypermutation metrics. The application supports multiscale analysis across sequences, clones, and repertoires, with interactive visualizations and statistical feature selection. 'AbSolution' also facilitates reproducible research by enabling structured export of data, code, parameters, and computational environments. See https://github.com/EDS-Bioinformatics-Laboratory/AbSolution for more details.

Changes in 1.0.2

Removed the dependency on iterors, which is scheduled for archival on CRAN. Parallel ORF and feature calculation now split the data into contiguous row chunks with parallel::splitIndices(), so each worker only receives its own rows instead of the whole dataset. Results are unchanged.
Parallel clusters are now always stopped, also when an error occurs during the analysis.
The analysis no longer fails when parallel::detectCores() returns NA; it falls back to a single worker.
Clear error messages when no sequences remain after filtering, or when the data do not form complete repertoire/germline pairs.
Fixed an "argument is of length zero" error when the PCA/UMAP plots were rendered before their colour selector existed.

Show all changes in 1.0.2Hide the rest of the changes in 1.0.2

Fixed renderDataTable warnings: table options are now passed to DT::datatable(), so the preview table header styling is applied as intended.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("AbSolution", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("EDS-Bioinformatics-Laboratory/AbSolution")

Development version from EDS-Bioinformatics-Laboratory/AbSolution. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-absolution

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 5.6 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-28
NOTE12 OK, 1 NOTE2026-07-27
OK13 OK2026-06-09

Show 5 earlier changesHide 5 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-10
ERROR12 OK, 1 ERROR2026-05-03
OK11 OK2026-04-25
ERROR7 OK, 1 ERROR2026-04-22

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.2

READMEYes · 435 wordsVignettesYes · 1 · staticNEWSYes · 100% structured · mentions 1.0.2Citation fileNoWebsiteYes · pkgdown

Help pages: 14 (13 internal)
Examples that run: 8%1 run in a plain check (under a condition) · 12 hold no code
Exported functions with examples: 93%
Documented parameters: 27%
Return-value docs: 86%
Help pages citing references: 0%

Vignettes (1)

AbSolution

How these are measured

Downloads

3.1K

CRAN downloads in the past year

Rank #5,320 · ~8/day · ~256/mo

Releases R versions

Daily download trend is not available in this view yet.

71630 days

1.5K90 days

3.1K1 year

Compare downloads with other packages →

Also on89 r2u

How downloads are counted

Repository

eds-bioinformatics-laboratory/absolution ↗Organization: EDS-Bioinformatics-Laboratory

3Stars

0Forks

0Open issues

0Open PRs

0Releases

29Commits

1Commit identities

airrseqrresearchencorereproducibility

License file reads as GPL-3.0 · 29 commits · Last activity 2026-09-25 · 0% stars, 30d

Responsiveness

not measured

Stars over time

2026-04-05 · 22026-07-07 · 3

How these are measured

PracticesBeta

7 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/eds-bioinformatics-laboratory/absolution on 2026-10-11.

Continuous integration (1)

GitHub Actions

Governance and community (1)

Contributing guide

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-09-25 · The repository has a site deploy workflow

pkgdown site last built 2026-09-25

CRAN release process (1)

cran-comments.md

Show all practicesHide 1 practice

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

49 external dependencies (excludes base and recommended)

Installing AbSolution adds 179 packages (75 with compiled code, 143 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB. 4 more not on CRAN are not measured.

Depends (1)

R >= 4.4.0

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (3)

Rodrigo García-Valiente

Maintainer since 1.0.0 (2026), Author

Charisios Triantafyllou

Author

Antoine van Kampen

Author, Thesis advisor

Releases (3)

Pick two releases to compare their code metrics.

1.0.2Latest
record
2026-09-25 · current release · diff ↗
1.0.1
record
2026-04-27 · diff ↗
R
R 4.6.0 released · 2026-04-24
1.0.0
record
2026-04-21
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-04-21
Total releases: 3 / 1 yrs
License: GPL (>= 3) OSI
Additional repositories: bioconductor.org
Minimum R: ≥ 4.4.0
Download size: 2.0 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("AbSolution")

Format

García-Valiente, R., Triantafyllou, C., & van Kampen, A. (2026). AbSolution: Interactive Feature-Based Analysis of AIRR-Seq Data (Version 1.0.2) [Computer software]. https://doi.org/10.32614/CRAN.package.AbSolution

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.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for AbSolution version 1.0.2 [Data set]. HJJB, LLC. Data release v2026-10-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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