CePa

0.8.2

Centrality-Based Pathway Enrichment

1packages depend

5.7Kdownloads / year

–test coverage

12/13checks pass

Overview

About

Maintained by Zuguang GuFirst published 2012-04-2810 releasesCRAN page ↗GitHub ↗

It aims to find significant pathways through network topology information. It has several advantages compared with current pathway enrichment tools. First, pathway node instead of single gene is taken as the basic unit when analysing networks to meet the fact that genes must be constructed into complexes to hold normal functions. Second, multiple network centrality measures are applied simultaneously to measure importance of nodes from different aspects to make a full view on the biological system. CePa extends standard pathway enrichment methods, which include both over-representation analysis procedure and gene-set analysis procedure. doi:10.1093/bioinformatics/btt008.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("CePa", 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("jokergoo/CePa")

Development version from jokergoo/CePa. 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-cepa

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

1NOTE12OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 2.4 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 33%
Documented parameters: 89%
Return-value docs: 52%
References docs: 10%

Downloads

5.7K

CRAN downloads in the past year

Rank #4,683 · ~16/day · ~478/mo

Releases R versions

Daily download trend is not available in this view yet.

49130 days

1.9K90 days

5.7K1 year

Compare downloads with other packages →

Also on310 r2u22 c2d4u

Repository

GitHub ↗ jokergoo/cepa

4Stars

4Forks

1Open issues

0Open PRs

0Releases

10Commits

1Contributors

10 commits · Last activity 2021-07-01

Repository practices

Upstream repositoryBeta

Checks run against github.com/jokergoo/cepa on 2026-07-30.

No development-tooling practices detected in the upstream repository.

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

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6.0

Imports (8)

igraphstatsgraphicsmethodsgrDevicesparallelRgraphviz graph

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

RCPA

Code & Tests

People & History

People (1)

Maintainer (1)

Zuguang Gu

Author, Maintainer

Authors (1)

Zuguang Gu

Author, Maintainer

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.8.2Latest
2026-04-10 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
0.8.1
2024-10-08 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.8.0
2022-06-11 · 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
0.7.0
2020-02-25 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.6
2018-06-04 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03

Show 9 earlier events

R
R 3.2.0 released · 2015-04-16
R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
0.5
2012-09-11 · diff ↗
0.4
2012-08-05 · diff ↗
0.3
2012-06-29 · diff ↗
0.2
2012-06-11 · diff ↗
0.1
2012-04-28
R
R 2.15.0 released · 2012-03-30

Package metadata

First published: 2012-04-28
Total releases: 10 / 14 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.6.0
Bundled data: 1.5 MB / 3 files
Download size: 3.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

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