R Observatory: Metrics for CSclone version 1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CSclone

1.0

Bayesian Nonparametric Modeling in R

0packages depend

2.2Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Peter WuFirst published 2016-11-121 releasesCRAN page ↗

Germline and somatic locus data which contain the total read depth and B allele read depth using Bayesian model (Dirichlet Process) to cluster. Meanwhile, the cluster model can deal with the SNVs mutation and the CNAs mutation.

Install

R (CRAN)Ubuntu (r2u)

install.packages("CSclone", 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-csclone

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 55 s · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

5

Dependencies · direct

Check history

NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 94%
Return-value docs: 100%
References docs: 17%

Downloads

2.2K

CRAN downloads in the past year

Rank #18,985 · ~6/day · ~185/mo

Releases R versions

Daily download trend is not available in this view yet.

18930 days

59390 days

2.2K1 year

Compare downloads with other packages →

Also on109 r2u

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Depends (6)

R >= 2.10lpSolve mcclust moments DNAcopystats

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (1)

Peter Wu

no longer listed · 1.0

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2016-11-12
Total releases: 1 / 10 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Download size: 10 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CSclone")

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 CSclone version 1.0 [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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