R Observatory: Metrics for speaq version 2.7.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

speaq

2.7.0

Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment, Peak Based Processing, Quantitative Analysis and Visualizations

3packages depend

9Kdownloads / year

–test coverage

0/13checks pass

Overview

About

Maintained by Charlie BeirnaertFirst published 2015-01-1415 releasesCRAN page ↗

Makes Nuclear Magnetic Resonance spectroscopy (NMR spectroscopy) data analysis as easy as possible by only requiring a small set of functions to perform an entire analysis. 'speaq' offers the possibility of raw spectra alignment and quantitation but also an analysis based on features whereby the spectra are converted to peaks which are then grouped and turned into features. These features can be processed with any number of statistical tools either included in 'speaq' or available elsewhere on CRAN. More details can be found in Vu et al. (2011) doi:10.1186/1471-2105-12-405 and Beirnaert et al. (2018) doi:10.1371/journal.pcbi.1006018.

Install

R (CRAN)Ubuntu (r2u)

install.packages("speaq", 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-speaq

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

13NOTE

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
NOTE r-oldrel-macos-arm64
NOTE r-oldrel-macos-x86_64
NOTE r-oldrel-windows-x86_64
NOTE r-patched-linux-x86_64
NOTE r-release-linux-x86_64
NOTE r-release-macos-arm64
NOTE r-release-macos-x86_64
NOTE r-release-windows-x86_64

Slowest check: 9.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

18

Dependencies · direct

Check history

NOTE2026-05-05
0 OK · 13 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-30
0 OK · 12 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 96%
Documented parameters: 100%
Return-value docs: 100%
References docs: 17%

Downloads

9K

CRAN downloads in the past year

Rank #4,523 · ~25/day · ~753/mo

Releases R versions

Daily download trend is not available in this view yet.

50930 days

1.7K90 days

9K1 year

Compare downloads with other packages →

Also on271 r2u1.9K bioconda105 c2d4u

Dependencies

Declared dependencies

15 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.1.0

Imports (18)

MassSpecWaveletclusterparalleldoSNOW data.table foreachstatsRfastutilsgraphicsgrDevicesggplot2 gridExtra reshape2 rvest xml2 missForest impute

LinkingTo (0)

none

Suggests (5)

datasetsknitr rmarkdowngridgridBase

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

3direct

0indirect

metabodecon ChemoSpec metabodeconplus

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (5)

Kris Laukens

no longer listed · 1.2.1 to 2.7.0

Dirk Valkenborg

no longer listed · 1.2.1 to 2.7.0

Trung Nghia Vu

no longer listed · 1.2.1 to 2.7.0

Charlie Beirnaert

no longer listed · 2.0.0 to 2.7.0

Pieter Meysman

no longer listed · 2.0.0 to 2.7.0

Package Timeline

15 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
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
2.7.0Latest
2022-05-23 · 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
2.6.1
2019-12-10 · diff ↗
2.6.0
2019-05-23 · diff ↗
R
R 3.6.0 released · 2019-04-26
2.5.0
2019-02-22 · diff ↗
2.4.0
2018-11-20 · diff ↗
2.3.3
2018-07-03 · diff ↗
R
R 3.5.0 released · 2018-04-23
2.3.1
2018-03-27 · diff ↗

Show 12 earlier events

2.3.0
2018-03-16 · diff ↗
2.2.0
2018-03-02 · diff ↗
2.1.0
2017-09-19 · diff ↗
2.0.0
2017-05-16 · diff ↗
R
R 3.4.0 released · 2017-04-21
1.2.3
2017-02-27 · diff ↗
1.2.2
2016-11-16 · diff ↗
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
1.2.1
2015-02-24 · diff ↗
1.2.0
2015-01-14
R
R 3.1.0 released · 2014-04-10

Package metadata

First published: 2015-01-14
Total releases: 15 / 11 yrs
License: Apache License 2.0 OSI
Minimum R: ≥ 3.1.0
Bundled data: 1.1 MB / 1 file
Download size: 3.0 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Chemometrics and Computational Physics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("speaq")

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 speaq version 2.7.0 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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