R Observatory: Metrics for KSEAapp version 2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

KSEAapp

2.0Package record

Kinase-Substrate Enrichment Analysis

0packages depend

5.6Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Danica WiredjaCRAN page ↗

Infers relative kinase activity from phosphoproteomics data using the method described by Casado et al. (2013) doi:10.1126/scisignal.2003573.

Install

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

install.packages("KSEAapp", 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-kseaapp

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-KSEAapp

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-KSEAapp

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: 1.3 min · r-oldrel-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-23
NOTE14 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0

READMENoVignettesYes · 1 · staticNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 9
Examples that run: 100%4 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

Vignettes (1)

KSEAapp Package Vignette HTML

How these are measured

Downloads

5.6K

CRAN downloads in the past year

Rank #5,432 · ~15/day · ~466/mo

Releases R versions

Daily download trend is not available in this view yet.

63530 days

1.5K90 days

5.6K1 year

Compare downloads with other packages →

Also on84 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing KSEAapp adds 4 packages (3 with compiled code, 4.9 MB of source tarballs). Heaviest: gplots 4.6 MB, gtools 236 KB, caTools 64 KB.

Depends (1)

R >= 2.10

Imports (3)

gplotsgraphicsstats

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

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)

Danica Wiredja

Author, Maintainer · added in 2.0

Maintainer since 0.99.0 (2017)

Listed in earlier versions (1)

Danica D. Wiredja

no longer listed · 0.99.0

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
2.0Latest
record
2026-03-13 · current release · diff ↗ ·
removed 1 export
KSEA.Complete
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
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
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
0.99.0
record
2017-05-02
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-05-02
Total releases: 2 / 9 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 2.10
Bundled data: 581 KB / 5 files
Download size: 602 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("KSEAapp")

Format

Wiredja, D. (2026). KSEAapp: Kinase-Substrate Enrichment Analysis (Version 2.0) [Computer software]. https://doi.org/10.32614/CRAN.package.KSEAapp

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 KSEAapp version 2.0 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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