R Observatory: Metrics for ePCR version 0.11.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ePCR

0.11.0

Ensemble Penalized Cox Regression for Survival Prediction

1packages depend

2.7Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Teemu Daniel LaajalaFirst published 2017-12-215 releasesCRAN page ↗

The top-performing ensemble-based Penalized Cox Regression (ePCR) framework developed during the DREAM 9.5 mCRPC Prostate Cancer Challenge https://www.synapse.org/ProstateCancerChallenge presented in Guinney J, Wang T, Laajala TD, et al. (2017) doi:10.1016/S1470-2045(16)30560-5 is provided here-in, together with the corresponding follow-up work. While initially aimed at modeling the most advanced stage of prostate cancer, metastatic Castration-Resistant Prostate Cancer (mCRPC), the modeling framework has subsequently been extended to cover also the non-metastatic form of advanced prostate cancer (CRPC). Readily fitted ensemble-based model S4-objects are provided, and a simulated example dataset based on a real-life cohort is provided from the Turku University Hospital, to illustrate the use of the package. Functionality of the ePCR methodology relies on constructing ensembles of strata in patient cohorts and averaging over them, with each ensemble member consisting of a highly optimized penalized/regularized Cox regression model. Various cross-validation and other modeling schema are provided for constructing novel model objects.

Install

R (CRAN)Ubuntu (r2u)

install.packages("ePCR", 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-epcr

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: 6.6 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

11

Dependencies · direct

Check history

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
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 303 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 93%
Documented parameters: 92%
Return-value docs: 82%
References docs: 20%

Downloads

2.7K

CRAN downloads in the past year

Rank #13,213 · ~8/day · ~229/mo

Releases R versions

Daily download trend is not available in this view yet.

20730 days

76390 days

2.7K1 year

Compare downloads with other packages →

Also on190 r2u

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (11)

grDevicesgraphicsstatsmethodsglmnet hamletsurvivaltimeROC pracma Bolstad2 impute

LinkingTo (0)

none

Suggests (7)

MASSROCR c060utilsMatrixknitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

oscar

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (4)

Teemu Daniel Laajala

no longer listed · 0.9.9-4 to 0.11.0

Mika Murtojärvi

no longer listed · 0.9.9-4

Mika Murtojrvi <mianmu2@hotmail.com>

no longer listed · 0.9.9-6 to 0.9.9-11

Mika Murtojarvi

no longer listed · 0.11.0

Package Timeline

5 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
0.11.0Latest
2024-02-19 · current release · diff ↗
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
0.9.9-11
2019-11-24 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.9.9-9
2019-04-11 · diff ↗
0.9.9-6
2018-05-29 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.9.9-4
2017-12-21
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-12-21
Total releases: 5 / 9 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 4.0 MB / 2 files
Download size: 4.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ePCR")

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 ePCR version 0.11.0 [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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