R Observatory: Metrics for biospear version 1.0.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

biospear

1.0.2

Biomarker Selection in Penalized Regression Models

0packages depend

2.9Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Stefan MichielsFirst published 2017-05-133 releasesCRAN page ↗

Provides some tools for developing and validating prediction models, estimate expected survival of patients and visualize them graphically. Most of the implemented methods are based on penalized regressions such as: the lasso (Tibshirani R (1996)), the elastic net (Zou H et al. (2005) doi:10.1111/j.1467-9868.2005.00503.x), the adaptive lasso (Zou H (2006) doi:10.1198/016214506000000735), the stability selection (Meinshausen N et al. (2010) doi:10.1111/j.1467-9868.2010.00740.x), some extensions of the lasso (Ternes et al. (2016) doi:10.1002/sim.6927), some methods for the interaction setting (Ternes N et al. (2016) doi:10.1002/bimj.201500234), or others. A function generating simulated survival data set is also provided.

Install

R (CRAN)Ubuntu (r2u)

install.packages("biospear", 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-biospear

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: 4.9 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

18

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

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 91%
Return-value docs: 100%
References docs: 67%

Downloads

2.9K

CRAN downloads in the past year

Rank #12,042 · ~8/day · ~244/mo

Releases R versions

Daily download trend is not available in this view yet.

22730 days

82490 days

2.9K1 year

Compare downloads with other packages →

Also on1.5K r2u

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (2)

R >= 2.10pkgconfig

Imports (17)

cobs corpcor devtools glmnetgraphicsgrplassoMASSMatrixmboostparallelplsRcox pROC PRROC RCurlstatssurvAUCsurvival

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (3)

Stefan Michiels

no longer listed · 1.0.0 to 1.0.2

Federico Rotolo

no longer listed · 1.0.0 to 1.0.2

Nils Ternes

no longer listed · 1.0.0 to 1.0.2

Package Timeline

3 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
1.0.2Latest
2018-12-04 · current release · diff ↗
unarchivedReturned to CRAN
2018-12-04
archivedRemoved from CRAN
2018-05-24
check problems were not corrected despite reminders
R
R 3.5.0 released · 2018-04-23
1.0.1
2017-08-11 · diff ↗
1.0.0
2017-05-13
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2017-05-13
Total releases: 3 / 9 yrs
License: GPL-2 OSI
Minimum R: ≥ 2.10
Bundled data: 2.2 MB / 2 files
Download size: 2.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("biospear")

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 biospear version 1.0.2 [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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