R Observatory: Metrics for DFD version 0.4.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DFD

0.4.0

Extract Drugs from Differential Expression Data from LINCS Database

0packages depend

4.2Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Mohamed SoudyFirst published 2023-10-104 releasesCRAN page ↗GitHub ↗

Get Drug information from given differential expression profile. The package search for the bioactive compounds from reference databases such as LINCS containing the genome-wide gene expression signature (GES) from tens of thousands of drug and genetic perturbations (Subramanian et al. (2017) DOI:10.1016/j.cell.2017.10.049).

Install

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

install.packages("DFD", 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("MohmedSoudy/DFD")

Development version from MohmedSoudy/DFD. 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-dfd

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

# 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-DFD

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-DFD

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 2.2 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 1 earlier snapshots

NOTE2026-03-10
13 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

4.2K

CRAN downloads in the past year

Rank #9,677 · ~11/day · ~347/mo

Releases R versions

Daily download trend is not available in this view yet.

18230 days

97990 days

4.2K1 year

Compare downloads with other packages →

Also on107 r2u

Repository

GitHub ↗ mohmedsoudy/dfd

2Stars

0Forks

0Open issues

0Open PRs

0Releases

7Commits

1Contributors

License GPL-2.0 · 7 commits · Last activity 2023-10-11 · 0% stars, 30d

Stars over time

2023-10-12 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

Checks run against github.com/mohmedsoudy/dfd on 2026-08-16.

No development-tooling practices detected in the upstream repository.

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (6)

stringr gprofiler2 scales ggplot2 gridExtra ggpubr

LinkingTo (0)

none

Suggests (2)

signatureSearch signatureSearchData

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Mohamed Soudy

Author, Maintainer

Authors (1)

Mohamed Soudy

Author, Maintainer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.4.0Latest
2025-12-22 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
0.3.0
2025-02-11 · diff ↗
0.2.0
2024-08-28 · diff ↗
R
R 4.4.0 released · 2024-04-24
0.1.0
2023-10-10
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-10-10
Total releases: 4 / 3 yrs
License: GPL-3 OSI
Download size: 5.5 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DFD")

Format

Soudy, M. (2025). DFD: Extract Drugs from Differential Expression Data from LINCS Database (Version 0.4.0) [Computer software]. https://doi.org/10.32614/CRAN.package.DFD

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 DFD version 0.4.0 [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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