R Observatory: Metrics for EBPRS version 2.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2026-05-14. Its history is shown below.

Reason: email to the maintainer is undeliverable

Details below reflect version 2.1.0, its last release before removal.

EBPRS

2.1.0Package record

Derive Polygenic Risk Score Based on Emprical Bayes Theory

0packages depend

1.4Kdownloads / year

–test coverage

–flavors OK

Overview

About

Maintained by Shuang SongCRAN page ↗

EB-PRS is a novel method that leverages information for effect sizes across all the markers to improve the prediction accuracy. No parameter tuning is needed in the method, and no external information is needed. This R-package provides the calculation of polygenic risk scores from the given training summary statistics and testing data. We can use EB-PRS to extract main information, estimate Empirical Bayes parameters, derive polygenic risk scores for each individual in testing data, and evaluate the PRS according to AUC and predictive r2. See Song et al. (2020) doi:10.1371/journal.pcbi.1007565 for a detailed presentation of the method.

Install

R (source archive)

url <- "https://cran.r-project.org/src/contrib/Archive/EBPRS/EBPRS_2.1.0.tar.gz"
pkgFile <- "EBPRS_2.1.0.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (2.1.0) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

Health

CRAN checks

CRAN check results are not tracked yet.

Status changes

NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.1.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 5
Examples that run: 100%2 run in a plain check
Exported functions with examples: 25%
Documented parameters: 100%
Return-value docs: 25%
Help pages citing references: 100%

How these are measured

Downloads

1.4K

CRAN downloads in the past year

Rank #25,761 · ~4/day · ~120/mo

Releases R versions

Daily download trend is not available in this view yet.

030 days

090 days

1.4K1 year

Compare downloads with other packages →

Also on69 r2u3 autocran

How downloads are counted

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (5)

R >= 3.5.0ROCRmethodsBEDMatrix data.table

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (4)

Shuang Song

Author, Maintainer since 1.0.1 (2018)

Wei Jiang

Author

Lin Hou

Author

Hongyu Zhao

Author

Releases (10)

Pick two releases to compare their code metrics.

archivedRemoved from CRAN
2026-05-14
email to the maintainer is undeliverable
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
2.1.0
record
2020-08-26 · diff ↗ ·
added 1 export
read_plink
2.0.4
record
2020-07-10 · diff ↗
R
R 4.0.0 released · 2020-04-24
2.0.3
record
2020-02-12 · diff ↗
2.0.1
record
2020-01-16 · diff ↗ ·
removed 4 exports
extractInfo, findPara, generateScore, getEffectSize

added 1 export
EBPRS
1.2.2
record
2019-11-07 · diff ↗
1.2.1
record
2019-10-12 · diff ↗
1.2.0
record
2019-10-10 · diff ↗
1.1.5
record
2019-08-07 · diff ↗

Show 4 earlier eventsHide 4 earlier events

R
R 3.6.0 released · 2019-04-26
1.1.2
record
2019-02-14 · diff ↗ ·
added 1 export
getEffectSize
1.0.1
record
2018-11-03
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-11-03
Total releases: 10 / 8 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.9 KB / 1 file
Download size: 13 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("EBPRS")

Format

Song, S., Jiang, W., Hou, L., & Zhao, H. (n.d.). EBPRS: Derive Polygenic Risk Score Based on Emprical Bayes Theory (Version 2.1.0) [Computer software]. Retrieved October 27, 2026, from https://CRAN.R-project.org/package=EBPRS

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 EBPRS version 2.1.0 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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