R Observatory: Metrics for SmartSVA version 0.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

SmartSVA

0.1.3

Fast and Robust Surrogate Variable Analysis

0packages depend

4.9Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Jun ChenFirst published 2016-11-134 releasesCRAN page ↗

Introduces a fast and efficient Surrogate Variable Analysis algorithm that captures variation of unknown sources (batch effects) for high-dimensional data sets. The algorithm is built on the 'irwsva.build' function of the 'sva' package and proposes a revision on it that achieves an order of magnitude faster running time while trading no accuracy loss in return.

Install

R (CRAN)Ubuntu (r2u)

install.packages("SmartSVA", 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-smartsva

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

2NOTE11OK

Failing flavors

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

Slowest check: 6.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

Dependencies · direct

Check history

NOTE2026-06-27
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-21
10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-06-09
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
11 OK · 1 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-06-06
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 4 earlier snapshots

ERROR2026-06-05
10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-04-22
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
8 OK · 5 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 100%

Downloads

4.9K

CRAN downloads in the past year

Rank #8,250 · ~14/day · ~411/mo

Releases R versions

Daily download trend is not available in this view yet.

31830 days

1.1K90 days

4.9K1 year

Compare downloads with other packages →

Also on381 r2u1.5K bioconda

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (4)

R >= 3.1.0sva isva RSpectra

Imports (3)

Rcppstatsutils

LinkingTo (2)

Rcpp RcppEigen

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (2)

Ehsan Behnam

no longer listed · 0.1.0 to 0.1.3

Jun Chen

no longer listed · 0.1.0 to 0.1.3

Package Timeline

4 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
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
0.1.3Latest
2017-05-28 · current release · diff ↗
0.1.2
2017-05-26 · diff ↗
R
R 3.4.0 released · 2017-04-21
0.1.1
2016-11-24 · diff ↗
0.1.0
2016-11-13
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-11-13
Total releases: 4 / 10 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.1.0
Download size: 5.4 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("SmartSVA")

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 SmartSVA version 0.1.3 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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