R Observatory: Metrics for CNprep version 2.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CNprep

2.2Package record

Pre-Process DNA Copy Number (CN) Data for Detection of CN Events

0packages depend

3Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Guoli SunCRAN page ↗

DNA copy number data evaluation using both their initial form (copy number as a noisy function of genomic position) and their approximation by a piecewise-constant function (segmentation), for the purpose of identifying genomic regions where the copy number differs from the norm.

Install

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

install.packages("CNprep", 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-cnprep

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-CNprep

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-CNprep

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Guoli Sun <guolisun87@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Alex",
                      family = "Krasnitz",
                      role = "aut"),
               person(given = "Guoli",
                      family = "Sun",
                      role = c("aut", "cre"),
                      email = "guolisun87@gmail.com"))
as necessary.

CRAN check page ↗

Slowest check: 1.2 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.2

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 8
Examples that run: 88%7 run in a plain check · 1 never run
Exported functions with examples: 100%
Documented parameters: 46%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3K

CRAN downloads in the past year

Rank #14,271 · ~8/day · ~249/mo

Releases R versions

Daily download trend is not available in this view yet.

28230 days

83590 days

3K1 year

Compare downloads with other packages →

Also on166 r2u21 autocran

How downloads are counted

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing CNprep adds 2 packages (2 with compiled code, 2.7 MB of source tarballs). Heaviest: mclust 2.7 MB, rlecuyer 14 KB.

Depends (5)

R >= 2.10parallelmclust rlecuyerstats

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

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 (from the free-text Author field) (2)

Alex Krasnitz

Guoli Sun

Maintainer since 1.0 (2012)

Releases (3)

Pick two releases to compare their code metrics.

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
R
R 4.3.0 released · 2023-04-21
2.2Latest
record
2022-05-24 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
2.0
record
2014-12-31 · diff ↗
R
R 3.1.0 released · 2014-04-10
1.0
record
2013-06-20

Show 1 earlier eventHide 1 earlier event

R
R 3.0.0 released · 2013-04-03

Package metadata

First published: 2013-06-20
Total releases: 3 / 13 yrs
License: GPL-2 OSI
Minimum R: ≥ 2.10
Bundled data: 3.9 MB / 6 files
Download size: 3.9 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CNprep")

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 CNprep version 2.2 [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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