R Observatory: Metrics for isoorbi version 1.5.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

isoorbi

1.5.2Package record

Process Orbitrap Isotopocule Data

0packages depend

3.7Kdownloads / year

81.9%test coverage

13/13flavors OK

Overview

About

Maintained by Caj NeubauerCRAN page ↗GitHub ↗Website ↗Issues ↗

Read and process isotopocule data from an Orbitrap Isotope Solutions mass spectrometer. Citation: Kantnerova et al. (Nature Protocols, 2024).

Changes in 1.5.2

This is a minor update to decrease package size for CRAN.

Enhancements

added orbi_get_example_files() that can download additional example files to provide easier access to test files for users

From NEWS.md in the release

Install

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

install.packages("isoorbi", 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("isoverse/isoorbi")

Development version from isoverse/isoorbi. 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-isoorbi

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-isoorbi

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-isoorbi

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: 5.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-20
ERROR12 OK, 1 ERROR2026-08-18
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09

Show 2 earlier changesHide 2 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.5.2

READMEYes · 591 wordsVignettesYes · 3 · dynamicNEWSYes · 100% structured · mentions 1.5.2Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 45includes a package overview page
Examples that run: 100%12 run in a plain check
Exported functions with examples: 27%
Documented parameters: 95%
Return-value docs: 70%
Help pages citing references: 0%

Vignettes (3)

How these are measured

Downloads

3.7K

CRAN downloads in the past year

Rank #13,279 · ~10/day · ~307/mo

Releases R versions

Daily download trend is not available in this view yet.

36130 days

86590 days

3.7K1 year

Compare downloads with other packages →

Also on99 r2u4 autocran

How downloads are counted

Repository

isoverse/isoorbi ↗Organization: isoverse

11Stars

3Forks

28Open issues

0Open PRs

7Releases

917Commits

5Commit identities

917 commits · Last activity 2026-10-04 · 0% stars, 30d · Default branch at 1.5.6, ahead of CRAN 1.5.2 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 92%
Median days to close, 50 most recently updated closed issues: 28
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-10-09 · 62026-09-04 · 11

How these are measured

PracticesBeta

12 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/isoverse/isoorbi on 2026-10-21.

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 (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-10-04 · The repository has a site deploy workflow

pkgdown site last built 2026-10-04

Coverage (1)

Coverage reporting (Codecov)

Reproducibility and dev environment (1)

Makefile

Show all practicesHide 2 practices

CRAN release process (1)

cran-comments.md

Lint, format, editor (3)

AirVS CodeRStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

24 external dependencies (excludes base and recommended)

Installing isoorbi adds 52 packages (27 with compiled code, 41 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, arrow 4.2 MB.

Depends (1)

R >= 4.4.0

Imports (21)

utilsstatsmethodsrlang cli glue withr lifecycle tidyr tibble tidyselect dplyr (>= 1.1.1)ggplot2 scales readr (>= 2.1.0)readxl openxlsx purrr prettyunits arrow knitr

LinkingTo (0)

none

Suggests (6)

devtools fansi rmarkdown testthat vdiffr forcats

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (3)

Caj Neubauer

Kristýna Kantnerová

Author

Sebastian Kopf

Author

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.5.2Latest
record
2025-10-03 · current release · diff ↗ ·
added 20 exports
orbi_add_to_aggregator, orbi_aggregate_raw, orbi_calculate_ions, orbi_check_isoraw, orbi_filter_files, orbi_filter_isotopocules, orbi_find_raw, orbi_get_aggregator, orbi_get_data, orbi_get_example_files, orbi_get_option, orbi_get_options, orbi_get_problems, orbi_identify_isotopocules, orbi_options, orbi_plot_spectra, orbi_read_raw, orbi_register_aggregator, orbi_show_problems, orbi_start_aggregator
R
R 4.5.0 released · 2025-04-11
1.3.1
record
2024-08-27 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.3.0
record
2023-11-09 · diff ↗ ·
removed 1 export
orbi_calculate_ratio

added 16 exports
orbi_add_blocks_to_plot, orbi_analyze_shot_noise, orbi_calculate_summarized_ratio, orbi_default_theme, orbi_define_block_for_flow_injection, orbi_export_data_to_excel, orbi_filter_flagged_data, orbi_find_isox, orbi_flag_outliers, orbi_flag_satellite_peaks, orbi_flag_weak_isotopocules, orbi_get_isotopocule_coverage, orbi_plot_isotopocule_coverage, orbi_plot_raw_data, orbi_plot_satellite_peaks, orbi_plot_shot_noise
1.1.0
record
2023-06-24 · diff ↗ ·
removed 1 export
%>%

added 7 exports
orbi_adjust_block, orbi_calculate_ratio, orbi_define_blocks_for_dual_inlet, orbi_get_blocks_info, orbi_get_settings, orbi_segment_blocks, orbi_set_settings
R
R 4.3.0 released · 2023-04-21
1.0.0
record
2022-10-17
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-10-17
Total releases: 5 / 4 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.4.0
Download size: 2.5 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("isoorbi")

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

It points to 10.1038/s41596-024-00981-5.

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 isoorbi version 1.5.2 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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