R Observatory: Metrics for TestNet version 1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

TestNet

1.0Package record

A Method for Inferring Microbial Networks with FDR Control

0packages depend

1.3Kdownloads / year

79.0%test coverage

13/13flavors OK

Overview

About

Maintained by Yi-Juan HuCRAN page ↗GitHub ↗Issues ↗

A testing method for inferring microbial networks. It differs from existing microbial network analyses in that it provides calibrated results by controlling the false discovery rate. The method accounts for the complex features of taxa count data. It also accommodates both independent and clustered samples, offers separate linear and nonlinear tests for each pair of taxa, and includes an omnibus test that bypasses the need to specify the type of relationship for each pair of taxa.

Install

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

install.packages("TestNet", 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("yijuanhu/TestNet")

Development version from yijuanhu/TestNet. 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-testnet

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-TestNet

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-TestNet

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: 2.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK6 OK2026-06-03

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0

READMEYes · 90 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 2
Examples that run: 100%2 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 50%

How these are measured

Downloads

1.3K

CRAN downloads in the past year

Rank #16,559 · ~4/day · ~107/mo

Releases R versions

Daily download trend is not available in this view yet.

27230 days

75990 days

1.3K1 year

Compare downloads with other packages →

Also on23 r2u2 autocran

How downloads are counted

Repository

yijuanhu/testnet ↗Account: yijuanhu

1Stars

0Forks

0Open issues

0Open PRs

0Releases

9Commits

1Commit identities

License file reads as GPL-3.0 · 9 commits · Last activity 2026-04-28 · 0% stars, 30d

Responsiveness

not measured

Stars over time

2025-09-19 · 12026-07-07 · 1

How these are measured

PracticesBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/yijuanhu/testnet on 2026-10-18.

Reproducibility and dev environment (1)

data-raw/

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

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing TestNet adds 5 packages (4 with compiled code, 3.1 MB of source tarballs). Heaviest: Rcpp 1.8 MB, RcppArmadillo 1.0 MB, matrixStats 207 KB.

Depends (1)

R >= 3.5.0

Imports (5)

permute matrixStats dcovstatsutils

LinkingTo (0)

none

Suggests (2)

R.rsp testthat

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)

Yi-Juan Hu

Author, Maintainer since 1.0 (2026)

Releases (1)

1.0Latest
record
2026-06-02 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-02
Total releases: 1 / 1 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 7.9 KB / 1 file
Download size: 15 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("TestNet")

Format

Hu, Y. (2026). TestNet: A Method for Inferring Microbial Networks with FDR Control (Version 1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.TestNet

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 TestNet version 1.0 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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