pastboon

0.1.4

Simulation of Parameterized Stochastic Boolean Networks

0packages depend

1.9Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Mohammad Taheri-LedariFirst published 2024-07-235 releasesCRAN page ↗GitHub ↗

A Boolean network is a particular kind of discrete dynamical system where the variables are simple binary switches. Despite its simplicity, Boolean network modeling has been a successful method to describe the behavioral pattern of various phenomena. Applying stochastic noise to Boolean networks is a useful approach for representing the effects of various perturbing stimuli on complex systems. A number of methods have been developed to control noise effects on Boolean networks using parameters integrated into the update rules. This package provides functions to examine three such methods: Boolean network with perturbations (BNp), described by Trairatphisan et al. (2013) doi:10.1186/1478-811X-11-46, stochastic discrete dynamical systems (SDDS), proposed by Murrugarra et al. (2012) doi:10.1186/1687-4153-2012-5, and Boolean network with probabilistic edge weights (PEW), presented by Deritei et al. (2022) doi:10.1371/journal.pcbi.1010536. This package includes source code derived from the 'BoolNet' package, which is licensed under the Artistic License 2.0.

Install

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

install.packages("pastboon", 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("taherimo/pastboon")

Development version from taherimo/pastboon. 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-pastboon

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-pastboon

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-pastboon

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: 1.1 min · r-release-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

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

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 75%

Downloads

1.9K

CRAN downloads in the past year

Rank #23,054 · ~5/day · ~157/mo

Releases R versions

Daily download trend is not available in this view yet.

11130 days

45390 days

1.9K1 year

Compare downloads with other packages →

Also on386 r2u4 autocran

Repository

GitHub ↗ taherimo/pastboon

0Stars

0Forks

0Open issues

0Open PRs

5Releases

110Commits

1Contributors

110 commits · Last activity 2026-02-08

Releases over time

2025-01-24 · 52026-07-07 · 5

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/taherimo/pastboon on 2026-07-31.

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (0)

none

LinkingTo (0)

none

Suggests (1)

BoolNet

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (5)

Maintainer (1)

Mohammad Taheri-Ledari

Author, Maintainer, Copyright holder

Authors (1)

Mohammad Taheri-Ledari

Author, Maintainer, Copyright holder

Contributors (4)

Contributor

Contributor

Contributor

Contributor

Mohammad Taheri-Ledari

Author, Maintainer, Copyright holder

Listed in earlier versions (1)

Troy D.

no longer listed · 0.1.0 to 0.1.4

Package Timeline

5 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.1.4Latest
2025-01-24 · current release · diff ↗
0.1.3
2025-01-08 · diff ↗
0.1.2
2024-08-22 · diff ↗
0.1.1
2024-08-19 · diff ↗
0.1.0
2024-07-23
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-07-23
Total releases: 5 / 2 yrs
License: Artistic-2.0 OSI
Minimum R: ≥ 3.5.0
Bundled data: 4.1 KB / 2 files
Download size: 37 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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