R Observatory: Metrics for CancerEvolutionVisualization version 2.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CancerEvolutionVisualization

2.0.1

Publication Quality Phylogenetic Tree Plots

0packages depend

2.4Kdownloads / year

67.4%test coverage

13/13checks pass

Overview

About

Maintained by Paul BoutrosFirst published 2022-10-042 releasesCRAN page ↗GitHub ↗

Generates tree plots with precise branch lengths, gene annotations, and cellular prevalence. The package handles complex tree structures (angles, lengths, etc.) and can be further refined as needed by the user.

Install

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

install.packages("CancerEvolutionVisualization", 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("uclahs-cds/package-CancerEvolutionVisualization")

Development version from uclahs-cds/package-CancerEvolutionVisualization. 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-cancerevolutionvisualization

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-CancerEvolutionVisualization

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-CancerEvolutionVisualization

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

Health

CRAN checks

13OK

Slowest check: 2.0 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.40

67.4%

Coverage · measured lines

100%

Documentation · exports

9

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
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 siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.4K

CRAN downloads in the past year

Rank #15,982 · ~7/day · ~203/mo

Releases R versions

Daily download trend is not available in this view yet.

19430 days

67790 days

2.4K1 year

Compare downloads with other packages →

Also on115 r2u42 autocran

Repository

GitHub ↗ uclahs-cds/package-cancerevolutionvisualization

2Stars

0Forks

13Open issues

0Open PRs

1Releases

1,046Commits

9Contributors

License GPL-2.0 · 1,046 commits · Last activity 2026-08-18

Stars over time

2022-10-15 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/uclahs-cds/package-cancerevolutionvisualization on 2026-08-23.

Continuous integration (1)

GitHub Actions

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

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (5)

R >= 3.5.0graphicsgridgridExtra gtable

Imports (5)

plyrgrDevicesutilsstringr BoutrosLab.plotting.general

LinkingTo (0)

none

Suggests (2)

testthat knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Paul Boutros

Maintainer

Authors (2)

Adriana Salcedo

Author

Dan Knight

Author

Contributors (1)

Helena Winata

Contributor

Package Timeline

2 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
R
R 4.4.0 released · 2024-04-24
2.0.1Latest
2023-11-21 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.1
2022-10-04
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-10-04
Total releases: 2 / 4 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5.0
Bundled data: 0.1 KB / 1 file
Download size: 161 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CancerEvolutionVisualization")

Format

Paul Boutros, Adriana Salcedo, Dan Knight, & Helena Winata. (2023). CancerEvolutionVisualization: Publication Quality Phylogenetic Tree Plots (Version 2.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.CancerEvolutionVisualization

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 CancerEvolutionVisualization version 2.0.1 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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