R Observatory: Metrics for ssizeRNA version 1.3.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ssizeRNA

1.3.3

Sample Size Calculation for RNA-Seq Experimental Design

1packages depend

4.5Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Ran BiFirst published 2015-04-309 releasesCRAN page ↗

We propose a procedure for sample size calculation while controlling false discovery rate for RNA-seq experimental design. Our procedure depends on the Voom method proposed for RNA-seq data analysis by Law et al. (2014) DOI:10.1186/gb-2014-15-2-r29 and the sample size calculation method proposed for microarray experiments by Liu and Hwang (2007) DOI:10.1093/bioinformatics/btl664. We develop a set of functions that calculates appropriate sample sizes for two-sample t-test for RNA-seq experiments with fixed or varied set of parameters. The outputs also contain a plot of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes. To install this package, please use 'source("http://bioconductor.org/biocLite.R"); biocLite("ssizeRNA")'. For R version 3.5 or greater, please use 'if(!requireNamespace("BiocManager", quietly = TRUE)){install.packages("BiocManager")}; BiocManager::install("ssizeRNA")'.

Install

R (CRAN)Ubuntu (r2u)

install.packages("ssizeRNA", 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-ssizerna

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

13OK

Slowest check: 5.2 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

8

Dependencies · direct

Check history

OK2026-08-20
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-08-12
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-08-04
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

Show 3 earlier snapshots

NOTE2026-06-08
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-07
12 OK · 0 NOTE · 0 WARNING · 1 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: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 67%

Downloads

4.5K

CRAN downloads in the past year

Rank #8,487 · ~12/day · ~372/mo

Releases R versions

Daily download trend is not available in this view yet.

29230 days

1.1K90 days

4.5K1 year

Compare downloads with other packages →

Also on122 r2u93 c2d4u

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.2.3

Imports (8)

MASSBiobase edgeR limma qvalue ssize.fdrgraphicsstats

LinkingTo (0)

none

Suggests (1)

knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

HEssRNA

Code & Tests

People & History

People (3)

Maintainer (1)

Ran Bi

Author, Maintainer

Authors (2)

Ran Bi

Author, Maintainer

Peng Liu

Author

Contributors (1)

Tim Triche

Contributor · added in 1.2.4

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.3.3Latest
2025-04-09 · current release · diff ↗
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
1.3.2
2019-08-20 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.3.1
2019-02-19 · diff ↗
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.2.9
2017-01-09 · diff ↗
1.2.8
2016-10-22 · diff ↗
1.2.6
2016-07-15 · diff ↗

Show 5 earlier events

R
R 3.3.0 released · 2016-05-03
1.2.4
2016-02-12 · diff ↗
1.1.2
2015-05-12 · diff ↗
1.1.1
2015-04-30
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-04-30
Total releases: 9 / 11 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.2.3
Bundled data: 193 KB / 1 file
Download size: 407 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Design of Experiments (DoE) & Analysis of Experimental Data

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ssizeRNA")

Format

Bi, R., Liu, P., & Triche, T. (2025). ssizeRNA: Sample Size Calculation for RNA-Seq Experimental Design (Version 1.3.3) [Computer software]. https://doi.org/10.32614/CRAN.package.ssizeRNA

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 ssizeRNA version 1.3.3 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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