R Observatory: Metrics for CorrectOverloadedPeaks version 1.3.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CorrectOverloadedPeaks

1.3.5

Correct Overloaded Peaks from GC-APCI-MS Data

1packages depend

2.9Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Jan LisecFirst published 2016-07-227 releasesCRAN page ↗GitHub ↗

Analyzes and modifies metabolomics raw data (generated using Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in 'xcmsRaw' format are accepted as input and 'mzXML' files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or an Isotopic-Ratio approach. Quality control plots are generated and corrected data are stored within the original 'xcmsRaw' or 'mzXML' respectively to allow further processing.

Install

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

install.packages("CorrectOverloadedPeaks", 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("janlisec/CorrectOverloadedPeaks")

Development version from janlisec/CorrectOverloadedPeaks. 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-correctoverloadedpeaks

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-CorrectOverloadedPeaks

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-CorrectOverloadedPeaks

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

Health

CRAN checks

13OK

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

Code health

Yes

Tests · ratio 0.00

0.0%

Coverage · measured lines

100%

Documentation · exports

1

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

READMEYes · 247 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 40%
Documented parameters: 100%
Return-value docs: 100%
References docs: 13%

Downloads

2.9K

CRAN downloads in the past year

Rank #12,189 · ~8/day · ~246/mo

Releases R versions

Daily download trend is not available in this view yet.

22430 days

81690 days

2.9K1 year

Compare downloads with other packages →

Also on200 r2u29 autocran

Repository

GitHub ↗ janlisec/correctoverloadedpeaks

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2025-02-27

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/janlisec/correctoverloadedpeaks on 2026-08-16.

Docs source (1)

README.Rmd

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

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10.0

Imports (1)

methods

LinkingTo (0)

none

Suggests (8)

bitops digest knitr rmarkdown spelling xcms XML xml2

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

1indirect

HiResTEC

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Jan Lisec

Author, Maintainer

Authors (1)

Jan Lisec

Author, Maintainer

Package Timeline

7 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
1.3.5Latest
2025-02-27 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
1.3.3
2023-09-08 · diff ↗
R
R 4.3.0 released · 2023-04-21
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
1.2.17
2019-07-23 · diff ↗
unarchivedReturned to CRAN
2019-07-23
archivedRemoved from CRAN
2019-06-02
requires non-portable package 'xcms' (requires 'mzR') used unconditionally
1.2.16
2019-05-15 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.2.15
2018-07-10 · diff ↗
R
R 3.5.0 released · 2018-04-23

Show 4 earlier events

R
R 3.4.0 released · 2017-04-21
1.2.14
2016-08-30 · diff ↗
1.2.13
2016-07-22
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-07-22
Total releases: 7 / 10 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10.0
Bundled data: 410 KB / 1 file
Download size: 489 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CorrectOverloadedPeaks")

Format

Lisec, J. (2025). CorrectOverloadedPeaks: Correct Overloaded Peaks from GC-APCI-MS Data (Version 1.3.5) [Computer software]. https://doi.org/10.32614/CRAN.package.CorrectOverloadedPeaks

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 CorrectOverloadedPeaks version 1.3.5 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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