R Observatory: Metrics for somaticflags version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

somaticflags

0.1.0Package record

Database of Somatic Flags

0packages depend

1.9Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Sam El-KamandCRAN page ↗GitHub ↗Issues ↗

Database of genes which frequently sustain somatic mutations, but are unlikely to drive cancer.

Changes in 0.1.0

Initial CRAN submission.

From NEWS.md in the release

Install

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

install.packages("somaticflags", 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("CCICB/somaticflags")

Development version from CCICB/somaticflags. 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-somaticflags

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-somaticflags

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-somaticflags

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: 54 s · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-07-16
WARNING12 OK, 1 WARNING2026-07-15
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMEYes · 1,086 wordsVignettesNoNEWSYes · 67% structured · mentions 0.1.0Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 2
Examples that run: 100%2 run in a plain check
Exported functions with examples: not tracked
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 0%

How these are measured

Downloads

1.9K

CRAN downloads in the past year

Rank #23,930 · ~5/day · ~159/mo

Releases R versions

Daily download trend is not available in this view yet.

19030 days

53590 days

1.9K1 year

Compare downloads with other packages →

Also on66 r2u1 autocran

How downloads are counted

Repository

ccicb/somaticflags ↗Organization: CCICB

1Stars

0Forks

1Open issues

0Open PRs

0Releases

23Commits

1Commit identities

23 commits · Last activity 2024-07-07 · 0% stars, 30d

Responsiveness

not measured

Stars over time

2022-05-12 · 12026-07-07 · 1

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/ccicb/somaticflags on 2026-10-22.

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing somaticflags adds no packages beyond those that come with R.

Depends (1)

R >= 2.10

Imports (0)

none

LinkingTo (0)

none

Suggests (2)

usethis devtools

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Sam El-Kamand

Author, Maintainer since 0.1.0 (2024)

Children's Cancer Institute Australia

Copyright holder

Releases (1)

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.1.0Latest
record
2024-07-09 · current release
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-07-09
Total releases: 1 / 2 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 2.10
Bundled data: 1.3 KB / 2 files
Download size: 6.0 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("somaticflags")

Format

El-Kamand, S., & Children's Cancer Institute Australia. (2024). somaticflags: Database of Somatic Flags (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.somaticflags

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 somaticflags version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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