Vicus

0.99.0

Exploiting Local Structures to Improve Network-Based Analysis of Biological Data

1packages depend

2.7Kdownloads / year

38.1%test coverage

12/13checks pass

Overview

About

Maintained by Koki TsuyuzakiFirst published 2023-03-231 releasesCRAN page ↗GitHub ↗

Compared with the similar graph embedding method such as Laplacian Eigenmaps, 'Vicus' can exploit more local structures of graph data. For the details of the methods, see the reference section of 'GitHub' README.md https://github.com/rikenbit/Vicus.

Install

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

install.packages("Vicus", 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("rikenbit/Vicus")

Development version from rikenbit/Vicus. 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-vicus

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-Vicus

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-Vicus

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 1.9 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.72

38.1%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 33%

Downloads

2.7K

CRAN downloads in the past year

Rank #10,344 · ~7/day · ~224/mo

Releases R versions

Daily download trend is not available in this view yet.

25830 days

99490 days

2.7K1 year

Compare downloads with other packages →

Also on98 r2u9 autocran113 conda_forge

Repository

GitHub ↗ rikenbit/vicus

2Stars

0Forks

0Open issues

0Open PRs

1Releases

5Commits

1Contributors

5 commits · Last activity 2023-03-24 · 0% stars, 30d

Stars over time

2023-07-25 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/rikenbit/vicus on 2026-07-31.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

Dockerfile

Governance and community (1)

Issue templates

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.4.0

Imports (5)

methodsutilsRANNMatrixRSpectra

LinkingTo (0)

none

Suggests (4)

scatterplot3d knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

2indirect

nnTensor

Code & Tests

People & History

People (1)

Maintainer (1)

Koki Tsuyuzaki

Author, Maintainer

Authors (1)

Koki Tsuyuzaki

Author, Maintainer

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.99.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2023-03-23
Total releases: 1 / 3 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.4.0
Download size: 101 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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