R Observatory: Metrics for linf version 0.3.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

linf

0.3.0Package record

L-Infinity Normalization and Dominant Community State Types

0packages depend

818downloads / year

82.4%test coverage

13/13flavors OK

Overview

About

Maintained by Pawel GajerCRAN page ↗GitHub ↗Website ↗Issues ↗

Implements L-infinity normalization for compositional matrices, assigns samples to dominant features, constructs truncated and hierarchically refined dominant community state types, and computes representative landmark profiles. The methods are described in the accompanying publication doi:10.48550/arXiv.2503.21543. Bundled vaginal and gut microbiome data support reproducible demonstrations of the package interface; phenotype fields in the stratified gut subset are illustrative and are not suitable for population-level inference.

Changes in 0.3.0

This release simplifies the public API and requires the explicit dCST object

structure introduced in linf 0.2.0.

refine.linf.csts() now supports both automatic and explicit dominance-lineage selection through lineages.to.refine; it can be called repeatedly to add successive hierarchy depths.
refine.linf.csts.iter() has been removed in favor of repeated calls to refine.linf.csts().
The narrow convenience wrapper asv.to.linf.csts() has been removed. Use filter.asv(), normalize.linf(), and linf.csts() explicitly so that each stage and its dCST parameters remain visible.
The standalone formatter latex.linf.csts() has been removed; dCST summary tables can be formatted with general reporting tools such as knitr::kable().

Show all changes in 0.3.0Hide the rest of the changes in 0.3.0

Pre-0.2 flat dCST objects are no longer accepted. Functions consuming fitted dCSTs now require the explicit active, pure-policy, and absorb-policy hierarchies produced by linf.csts().

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("linf", 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("pgajer/linf")

Development version from pgajer/linf. 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-linf

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

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-linf

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-linf

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 1.8 min · r-oldrel-macos-x86_64

Status changes

OK13 OKNow
OK7 OK2026-08-06

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.0

READMEYes · 678 wordsVignettesYes · 2 · dynamicNEWSYes · 100% structured · mentions 0.3.0Citation fileYes · cites a publicationWebsiteYes · pkgdown

The repository also keeps web-only articles.

Help pages: 18
Examples that run: 100%18 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 11%

Vignettes (2)

How these are measured

Downloads

818

CRAN downloads in the past year

Rank #14,628 · ~2/day · ~68/mo

Releases R versions

Daily download trend is not available in this view yet.

26630 days

81890 days

8181 year

Compare downloads with other packages →

Also on27 r2u2 autocran

How downloads are counted

Repository

pgajer/linf ↗Account: pgajer

0Stars

1Forks

0Open issues

0Open PRs

0Releases

67Commits

1Commit identities

67 commits · Last activity 2026-10-04 · Default branch at 0.3.1, ahead of CRAN 0.3.0 (checked 2026-10-22)

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 24

Forks over time

2026-08-05 · 02026-09-30 · 1

How these are measured

PracticesBeta

11 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/pgajer/linf on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Governance and community (1)

Contributing guide

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-09-10 · The repository has a site deploy workflow

pkgdown site last built 2026-09-10

Reproducibility and dev environment (2)

data-raw/Makefile

Show all practicesHide 2 practices

CRAN release process (1)

cran-comments.md

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing linf adds no packages beyond those that come with R.

Depends (1)

R >= 4.0

Imports (2)

Matrixmethods

LinkingTo (0)

none

Suggests (5)

testthat htmltools knitr plotly rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Pawel Gajer

Author, Maintainer since 0.1.0 (2026)

Releases (3)

Pick two releases to compare their code metrics.

0.3.0Latest
record
2026-08-31 · current release · diff ↗ ·
removed 3 exports
asv.to.linf.csts, latex.linf.csts, refine.linf.csts.iter
0.2.0
record
2026-08-05 · diff ↗ ·
removed 3 exports
collapse.rare, expand.rare, linf.cells

added 2 exports
dcst.view, linf.dominant.features
0.1.0
record
2026-08-05
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-08-05
Total releases: 3 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.0
Bundled data: 652 KB / 5 files
Download size: 1.0 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("linf")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.48550/arxiv.2503.21543.

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 linf version 0.3.0 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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