R Observatory: Metrics for LipidMS version 3.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

LipidMS

3.1.3Package record

Lipid Annotation for LC-MS/MS DDA or DIA Data

1packages depend

4.7Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by M Isabel Alcoriza-BalaguerCRAN page ↗

Lipid annotation in untargeted LC-MS lipidomics based on fragmentation rules. Alcoriza-Balaguer MI, Garcia-Canaveras JC, Lopez A, Conde I, Juan O, Carretero J, Lahoz A (2019) doi:10.1021/acs.analchem.8b03409.

Install

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

install.packages("LipidMS", 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-lipidms

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-LipidMS

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-LipidMS

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: 5.1 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 3.1.3

READMEYes · 90 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 193 (78 internal)
Examples that run: 2%1 run in a plain check · 57 never run
Exported functions with examples: 79%
Documented parameters: 94%
Return-value docs: 97%
Help pages citing references: 4%

Vignettes (1)

Vignette HTML

How these are measured

Downloads

4.7K

CRAN downloads in the past year

Rank #7,720 · ~13/day · ~388/mo

Releases R versions

Daily download trend is not available in this view yet.

54630 days

1.2K90 days

4.7K1 year

Compare downloads with other packages →

Also on422 r2u5 autocran

How downloads are counted

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing LipidMS adds 60 packages (26 with compiled code, 46 MB of source tarballs). Heaviest: ggplot2 6.0 MB, bslib 5.6 MB, patchwork 3.2 MB.

Depends (4)

R >= 4.0ggplot2 future future.apply

Imports (13)

readMzXmlDatautilsCHNOSZ scalesstatsgraphicsgrDevicesiterators patchwork DT R.utilsparallelparallelly

LinkingTo (0)

none

Suggests (6)

knitr rmarkdown shiny shinythemes shinyjs plotly

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Depends 1

Depends, Imports or LinkingTo, most downloaded first

FAMetA

How these are counted

Code & Tests

Datasets

People & History

People (2)

M Isabel Alcoriza-Balaguer

Author, Maintainer since 0.1.0 (2018)

Celia Regal-Marques

Author

Listed in earlier versions (3)

Show 3 peopleHide 3 people

J Carlos Garcia-Canaveras

no longer listed · 0.1.0 to 2.1.3

Alcoriza-Balaguer

no longer listed · 3.1.0 to 3.1.3

Regal-Marques

no longer listed · 3.1.0 to 3.1.3

Releases (19)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
3.1.3Latest
record
2026-03-23 · current release · diff ↗
3.1.2
record
2025-12-18 · diff ↗
3.1.1
record
2025-11-03 · diff ↗
3.1.0
record
2025-10-27 · diff ↗ ·
added 1 export
idPIpos
R
R 4.5.0 released · 2025-04-11
3.0.5
record
2024-05-27 · diff ↗
R
R 4.4.0 released · 2024-04-24
3.0.4
record
2024-02-19 · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
3.0.3
record
2022-02-22 · diff ↗ ·
added 1 export
idSMneg
3.0.2
record
2022-01-17 · diff ↗
3.0.1
record
2021-07-07 · diff ↗
3.0.0
record
2021-05-25 · diff ↗ ·
added 22 exports
batchdataProcessing, setmsbatch, alignmsbatch, groupmsbatch, fillpeaksmsbatch, idPConeg, idPCpneg, idPEoneg, idPEpneg, idCerPneg, idPCopos, idPCppos, idPEopos, idPEppos, idCerPpos, idAcylCerneg, idAcylCerpos, annotatemsbatch, plotticmsbatch, ploteicmsbatch, rtdevplot, searchIsotopesmsbatch
R
R 4.1.0 released · 2021-05-18

Show 14 earlier eventsHide 14 earlier events

2.1.3
record
2021-03-18 · diff ↗
2.1.2
record
2021-03-02 · diff ↗
2.1.1
record
2021-02-22 · diff ↗
2.1.0
record
2021-02-11 · diff ↗
2.0.0
record
2021-01-19 · diff ↗ ·
removed 1 export
sepByCE

added 4 exports
ddaFrags, idPGpos, LipidMSapp, plotLipids
1.2.0
record
2020-11-20 · diff ↗
R
R 4.0.0 released · 2020-04-24
unarchivedReturned to CRAN
2019-10-21
1.1.0
record
2019-10-21 · diff ↗
archivedRemoved from CRAN
2019-06-02
requires non-portable package 'mzR' from BioC via 'CAMERA'
R
R 3.6.0 released · 2019-04-26
1.0.0
record
2018-10-15 · diff ↗ ·
added 2 exports
assignDB, searchIsotopes
0.1.0
record
2018-07-12
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-07-12
Total releases: 19 / 8 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 4.0
Bundled data: 38 KB / 41 files
Download size: 1.7 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("LipidMS")

Format

Alcoriza-Balaguer, M. I., & Regal-Marques, C. (2026). LipidMS: Lipid Annotation for LC-MS/MS DDA or DIA Data (Version 3.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.LipidMS

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 LipidMS version 3.1.3 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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