R Observatory: Metrics for CeRNASeek version 2.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CeRNASeek

2.1.3Package record

Identification and Analysis of ceRNA Regulation

0packages depend

3.1Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Mengying ZhangCRAN page ↗

Provides several functions to identify and analyse miRNA sponge, including popular methods for identifying miRNA sponge interactions, two types of global ceRNA regulation prediction methods and four types of context-specific prediction methods( Li Y et al.(2017) doi:10.1093/bib/bbx137), which are based on miRNA-messenger RNA regulation alone, or by integrating heterogeneous data, respectively. In addition, For predictive ceRNA relationship pairs, this package provides several downstream analysis algorithms, including regulatory network analysis and functional annotation analysis, as well as survival prognosis analysis based on expression of ceRNA ternary pair.

Install

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

install.packages("CeRNASeek", 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-cernaseek

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-CeRNASeek

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-CeRNASeek

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Mengying Zhang <zhangmengying@hrbmu.edu.cn>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = c("Mengying", "Zhang,Yongsheng", "Li,Juan", "Xu*,Xia"),
                      family = "Li*",
                      role = "aut"),
               person(given = "Mengying",
                      family = "Zhang",
                      role = "cre",
                      email = "zhangmengying@hrbmu.edu.cn"))
as necessary.

CRAN check page ↗

Slowest check: 1.9 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.1.3

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 11includes a package overview page
Examples that run: 100%10 run in a plain check
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 55%

How these are measured

Downloads

3.1K

CRAN downloads in the past year

Rank #11,377 · ~9/day · ~262/mo

Releases R versions

Daily download trend is not available in this view yet.

36630 days

92790 days

3.1K1 year

Compare downloads with other packages →

Also on270 r2u12 autocran40 c2d4u

How downloads are counted

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing CeRNASeek adds 10 packages (7 with compiled code, 8.2 MB of source tarballs). Heaviest: igraph 4.8 MB, vctrs 1.0 MB, rlang 766 KB.

Depends (1)

R >= 3.1.0

Imports (4)

gtools igraphsurvivalparallel

LinkingTo (0)

none

Suggests (0)

none

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 (from the free-text Author field) (4)

Maintainer since 1.0 (2019)

Releases (5)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
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
2.1.3Latest
record
2020-04-29 · current release · diff ↗
R
R 4.0.0 released · 2020-04-24
2.1.2
record
2020-01-11 · diff ↗
2.1
record
2019-07-20 · diff ↗
2.0
record
2019-07-08 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.0
record
2019-04-04
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-04-04
Total releases: 5 / 7 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.1.0
Bundled data: 414 KB / 1 file
Download size: 433 KB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CeRNASeek")

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 CeRNASeek version 2.1.3 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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