R Observatory: Metrics for DRomics version 2.6.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DRomics

2.6.3

Dose Response for Omics

0packages depend

4.6Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Aurelie SiberchicotFirst published 2019-01-1612 releasesCRAN page ↗

Several functions are provided for dose-response (or concentration-response) characterization from omics data. 'DRomics' is especially dedicated to omics data obtained using a typical dose-response design, favoring a great number of tested doses (or concentrations) rather than a great number of replicates (no need of replicates). 'DRomics' provides functions 1) to check, normalize and or transform data, 2) to select monotonic or biphasic significantly responding items (e.g. probes, metabolites), 3) to choose the best-fit model among a predefined family of monotonic and biphasic models to describe each selected item, 4) to derive a benchmark dose or concentration and a typology of response from each fitted curve. In the available version data are supposed to be single-channel microarray data in log2, RNAseq data in raw counts, or already pretreated continuous omics data (such as metabolomic data) in log scale. In order to link responses across biological levels based on a common method, 'DRomics' also handles apical data as long as they are continuous and follow a normal distribution for each dose or concentration, with a common standard error. For further details see Delignette-Muller et al (2023) DOI:10.24072/pcjournal.325 and Larras et al (2018) DOI:10.1021/acs.est.8b04752.

Install

R (CRAN)Ubuntu (r2u)

install.packages("DRomics", 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-dromics

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

13OK

Slowest check: 13.2 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.33

not tracked

Coverage

100%

Documentation · exports

10

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
OK2026-06-27
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-21
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 5 earlier snapshots

ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-10
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-03
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 39%

Downloads

4.6K

CRAN downloads in the past year

Rank #6,461 · ~13/day · ~383/mo

Releases R versions

Daily download trend is not available in this view yet.

32830 days

1.3K90 days

4.6K1 year

Compare downloads with other packages →

Also on190 r2u22 c2d4u

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Depends (6)

R >= 3.5.0DESeq2grDeviceslimma SummarizedExperimentutils

Imports (5)

ggfortify ggplot2graphicsrlangstats

LinkingTo (0)

none

Suggests (15)

knitrparallelplotly rmarkdown shiny shinyBS shinycssloaders shinyjs shinyWidgets sortable sva svglite testthat VennDiagram withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Aurelie Siberchicot

Author, Maintainer

Authors (3)

Aurelie Siberchicot

Author, Maintainer

Elise Billoir

Author

Marie-Laure Delignette-Muller

Author

Contributors (1)

Floriane Larras

Contributor

Package Timeline

12 releases. Pick two to compare their code metrics. R releases are shown for context.

2.6.3Latest
2026-07-31 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2.6-2
2024-10-16 · diff ↗
2.6-0
2024-09-30 · diff ↗
R
R 4.4.0 released · 2024-04-24
2.5-2
2024-01-31 · diff ↗
R
R 4.3.0 released · 2023-04-21
2.5-0
2023-01-24 · diff ↗
R
R 4.2.0 released · 2022-04-22
2.4-0
2022-01-06 · diff ↗
2.3-0
2021-10-04 · diff ↗
R
R 4.1.0 released · 2021-05-18
2.2-0
2021-02-09 · diff ↗
2.1-3
2020-09-23 · diff ↗
2.1-2
2020-09-22 · diff ↗

Show 5 earlier events

R
R 4.0.0 released · 2020-04-24
2.0-1
2019-09-16 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.0-2
2019-01-16
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-01-16
Total releases: 12 / 7 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 554 KB / 4 files
Download size: 3.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DRomics")

Format

Siberchicot, A., Billoir, E., Delignette-Muller, M., & Larras, F. (2026). DRomics: Dose Response for Omics (Version 2.6.3) [Computer software]. https://doi.org/10.32614/CRAN.package.DRomics

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 DRomics version 2.6.3 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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