R Observatory: Metrics for MetabolomicsBasics version 1.4.7

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MetabolomicsBasics

1.4.7Package record

Basic Functions to Investigate Metabolomics Data Matrices

0packages depend

3.3Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Jan LisecCRAN page ↗GitHub ↗

A set of functions to investigate raw data from (metabol)omics experiments intended to be used on a raw data matrix, i.e. following peak picking and signal deconvolution. Functions can be used to normalize data, detect biomarkers and perform sample classification. A detailed description of best practice usage may be found in the publication doi:10.1007/978-1-4939-7819-9_20.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("MetabolomicsBasics", 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/MetabolomicsBasics")

Development version from janlisec/MetabolomicsBasics. 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-metabolomicsbasics

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 4.2 min · r-oldrel-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
OK13 OK2026-06-09

Show 6 earlier changesHide 6 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-12
WARNING12 OK, 1 WARNING2026-05-11
OK13 OK2026-05-02
ERROR11 OK, 1 ERROR2026-04-25
NOTE13 OK, 1 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.4.7

READMEYes · 121 wordsVignettesNoNEWSNoCitation fileYes · cites a publicationWebsitenot declared in DESCRIPTION

Help pages: 23
Examples that run: 94%16 run in a plain check · 1 never run
Exported functions with examples: 85%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3.3K

CRAN downloads in the past year

Rank #10,483 · ~9/day · ~275/mo

Releases R versions

Daily download trend is not available in this view yet.

42130 days

97590 days

3.3K1 year

Compare downloads with other packages →

Also on148 r2u34 c2d4u

How downloads are counted

Repository

janlisec/metabolomicsbasics ↗Account: janlisec

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2026-01-21 · Default branch at 1.5.1, ahead of CRAN 1.4.7 (checked 2026-10-18)

Responsiveness

not measured

How these are measured

PracticesBeta

4 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/janlisec/metabolomicsbasics on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Installing MetabolomicsBasics adds 107 packages (61 with compiled code, 92 MB of source tarballs). Heaviest: rcdklibs 19 MB, stringi 11 MB, ggplot2 6.0 MB. 1 more not on CRAN is not measured.

Depends (1)

R >= 2.10.0

Imports (11)

C50 caret e1071 fs HiResTEC InterpretMSSpectrum pcaMethods plyrrpartrlang webchem

LinkingTo (0)

none

Suggests (3)

mixOmics ropls xcms

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 (1)

Jan Lisec

Author, Maintainer since 1.0 (2018)

Releases (8)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.4.7Latest
record
2025-12-03 · current release · diff ↗ ·
added 1 export
read_msdial
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.4.5
record
2024-01-31 · diff ↗ ·
added 1 export
PolarCoordHeterPlot
1.4.3
record
2023-10-27 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.4
record
2023-01-30 · diff ↗ ·
added 2 exports
sumformula_from_CAS, unique_subformula_masses
1.3
record
2022-10-01 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.2
record
2021-04-18 · diff ↗ ·
added 3 exports
find_boundaries, msconvert, spectra_format_converter
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.1
record
2018-11-12 · diff ↗
R
R 3.5.0 released · 2018-04-23

Show 2 earlier eventsHide 2 earlier events

1.0
record
2018-03-23
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-03-23
Total releases: 8 / 8 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10.0
Bundled data: 98 KB / 3 files
Download size: 184 KB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' entry:

citation("MetabolomicsBasics")

The package provides a citation file, so citation() returns the authors' own entry.

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 MetabolomicsBasics version 1.4.7 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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