R Observatory: Metrics for CEDA version 1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CEDA

1.1.1Package record

CRISPR Screen and Gene Expression Differential Analysis

0packages depend

3.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Lianbo YuCRAN page ↗

Provides analytical methods for analyzing CRISPR screen data at different levels of gene expression. Multi-component normal mixture models and EM algorithms are used for modeling.

Install

R (CRAN)Ubuntu (r2u)

install.packages("CEDA", 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-ceda

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 7.7 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK12 OK2026-04-25

Show 2 earlier changesHide 2 earlier changes

ERROR13 OK, 1 ERROR2026-03-30
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.1

READMEYes · 2 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 14
Examples that run: 100%3 run in a plain check
Exported functions with examples: 30%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

CRISPR Screen and Gene Expression Differential Analysis

How these are measured

Downloads

3.4K

CRAN downloads in the past year

Rank #8,938 · ~9/day · ~286/mo

Releases R versions

Daily download trend is not available in this view yet.

40330 days

1.1K90 days

3.4K1 year

Compare downloads with other packages →

Also on334 r2u

How downloads are counted

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Installing CEDA adds 70 packages (37 with compiled code, 72 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB. 1 more not on CRAN is not measured.

Depends (2)

R >= 3.5.0limma

Imports (7)

statsmixtools ggplot2 dplyr ggsci ggridges ggprism

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 (4)

Lianbo Yu

Author, Maintainer since 1.0.2 (2022)

Kevin R. Coombes

Author

Lang Li

Author · added in 1.1.0

Yue Zhao

Author · added in 1.1.0

Listed in earlier versions (1)

Kevin R.

no longer listed · 1.0.2 to 1.1.1

Releases (3)

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
1.1.1Latest
record
2024-02-27 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
unarchivedReturned to CRAN
2022-08-11
1.1.0
record
2022-08-11 · diff ↗ ·
added 3 exports
densityPlot, preparePlotData, ridgePlot
archivedRemoved from CRAN
2022-06-17
check problems were not corrected in time
R
R 4.2.0 released · 2022-04-22
1.0.2
record
2022-01-07
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2022-01-07
Total releases: 3 / 4 yrs
License: Apache License (== 2.0)
Minimum R: ≥ 3.5.0
Bundled data: 693 KB / 1 file
Download size: 2.9 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CEDA")

Format

Yu, L., Coombes, K. R., Li, L., & Zhao, Y. (2024). CEDA: CRISPR Screen and Gene Expression Differential Analysis (Version 1.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.CEDA

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 CEDA version 1.1.1 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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