R Observatory: Metrics for DANDELION version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DANDELION

0.1.0Package record

Discovery of Candidate Disease Genes Using Trans-Regulatory Effects

0packages depend

1.2Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Peixin TianCRAN page ↗

Implements the DANDELION method for prioritizing candidate disease-related proximal genes by integrating trans-regulatory association p-values and gene-level trait association p-values. The statistical testing framework builds on the divide-aggregate composite-null test described by Liu et al. (2022) doi:10.1080/01621459.2021.1914634. The biological application and SNP/gene-based prioritization workflow are motivated by Salamone et al. (under review), "Leveraging trans-gene regulation prioritizes central genes and pathways in asthma". The package provides functions for identifying distal-proximal gene pairs, organizing significant pairs into genomic loci, and visualizing resulting gene networks.

Install

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

install.packages("DANDELION", 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-dandelion

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-DANDELION

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-DANDELION

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: 53 s · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-28
NOTE12 OK, 1 NOTE2026-07-27
OK6 OK2026-05-05

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 7 (1 internal)
Examples that run: 100%1 run in a plain check
Exported functions with examples: 25%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

1.2K

CRAN downloads in the past year

Rank #21,380 · ~3/day · ~96/mo

Releases R versions

Daily download trend is not available in this view yet.

23330 days

61490 days

1.2K1 year

Compare downloads with other packages →

Also on31 r2u8 autocran

How downloads are counted

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing DANDELION adds 9 packages (6 with compiled code, 8.0 MB of source tarballs). Heaviest: igraph 4.8 MB, vctrs 1.0 MB, rlang 766 KB.

Depends (0)

none

Imports (1)

igraph

LinkingTo (0)

none

Suggests (1)

qvalue

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)

Peixin Tian

Author, Maintainer since 0.1.0 (2026)

Releases (1)

0.1.0Latest
record
2026-05-04 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-05-04
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Additional repositories: bioconductor.org
Download size: 11 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DANDELION")

Format

Tian, P. (2026). DANDELION: Discovery of Candidate Disease Genes Using Trans-Regulatory Effects (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.DANDELION

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 DANDELION version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-19. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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