R Observatory: Metrics for RANKS version 1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

RANKS

1.1Package record

Ranking of Nodes with Kernelized Score Functions

0packages depend

2.8Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Giorgio ValentiniCRAN page ↗

Implementation of Kernelized score functions and other semi-supervised learning algorithms for node label ranking to analyze biomolecular networks. RANKS can be easily applied to a large set of different relevant problems in computational biology, ranging from automatic protein function prediction, to gene disease prioritization and drug repositioning, and more in general to any bioinformatics problem that can be formalized as a node label ranking problem in a graph. The modular nature of the implementation allows to experiment with different score functions and kernels and to easily compare the results with baseline network-based methods such as label propagation and random walk algorithms, as well as to enlarge the algorithmic scheme by adding novel user-defined score functions and kernels.

Install

R (CRAN)Ubuntu (r2u)

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

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

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-ranks

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

2NOTE11OK

Check messages

NOTEcompiled coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

File ‘RANKS/libs/RANKS.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.

CRAN check page ↗

Slowest check: 2.7 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 26includes a package overview page
Examples that run: 80%20 run in a plain check · 5 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 31%

How these are measured

Downloads

2.8K

CRAN downloads in the past year

Rank #15,483 · ~8/day · ~236/mo

Releases R versions

Daily download trend is not available in this view yet.

28830 days

79190 days

2.8K1 year

Compare downloads with other packages →

Also on341 r2u

How downloads are counted

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing RANKS adds 2 packages (2 with compiled code, 274 KB of source tarballs). Heaviest: PerfMeas 265 KB, NetPreProc 8.8 KB. 3 more not on CRAN are not measured.

Depends (0)

none

Imports (6)

methodsgraph RBGL limma NetPreProc PerfMeas

LinkingTo (0)

none

Suggests (1)

bionetdata

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Giorgio Valentini

Author, Maintainer · added in 1.1

Maintainer since 1.0 (2015)

Listed in earlier versions (3)

Show 3 peopleHide 3 people

Giorgio Valentini -- AnacletoLab

no longer listed · 1.0

Dipartimento di Informatica

no longer listed · 1.0

Universita' degli Studi di Milano

no longer listed · 1.0

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
unarchivedReturned to CRAN
2022-09-21
1.1Latest
record
2022-09-21 · current release · diff ↗
archivedRemoved from CRAN
2022-05-23
requires archived package 'PerfMeas'
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
1.0
record
2015-12-10
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-12-10
Total releases: 2 / 11 yrs
License: GPL (>= 2) OSI
Download size: 291 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("RANKS")

Format

Valentini, G. (2022). RANKS: Ranking of Nodes with Kernelized Score Functions (Version 1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.RANKS

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 RANKS version 1.1 [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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