R Observatory: Metrics for mdpeer version 1.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

mdpeer

1.0.1Package record

Graph-Constrained Regression with Enhanced Regularization Parameters Selection

0packages depend

2.5Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Marta KarasCRAN page ↗

Provides graph-constrained regression methods in which regularization parameters are selected automatically via estimation of equivalent Linear Mixed Model formulation. 'riPEER' (ridgified Partially Empirical Eigenvectors for Regression) method employs a penalty term being a linear combination of graph-originated and ridge-originated penalty terms, whose two regularization parameters are ML estimators from corresponding Linear Mixed Model solution; a graph-originated penalty term allows imposing similarity between coefficients based on graph information given whereas additional ridge-originated penalty term facilitates parameters estimation: it reduces computational issues arising from singularity in a graph-originated penalty matrix and yields plausible results in situations when graph information is not informative. 'riPEERc' (ridgified Partially Empirical Eigenvectors for Regression with constant) method utilizes addition of a diagonal matrix multiplied by a predefined (small) scalar to handle the non-invertibility of a graph Laplacian matrix. 'vrPEER' (variable reducted PEER) method performs variable-reduction procedure to handle the non-invertibility of a graph Laplacian matrix.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("mdpeer", 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-mdpeer

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-mdpeer

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-mdpeer

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

2NOTE11OK

Check messages

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘glmnet’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 2.2 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE9 OK, 5 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.1

READMEYes · 203 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 8includes a package overview page
Examples that run: 100%7 run in a plain check
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 38%

Vignettes (1)

Intro and usage examples

How these are measured

Downloads

2.5K

CRAN downloads in the past year

Rank #17,964 · ~7/day · ~205/mo

Releases R versions

Daily download trend is not available in this view yet.

28530 days

70790 days

2.5K1 year

Compare downloads with other packages →

Also on69 r2u10 autocran

How downloads are counted

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Installing mdpeer adds 35 packages (17 with compiled code, 38 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, glmnet 2.7 MB.

Depends (1)

R >= 3.3.3

Imports (9)

reshape2 ggplot2nlmebootnloptr rootSolve psych magic glmnet

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (3)

Marta Karas

Author, Maintainer since 0.1.0 (2016)

Damian Brzyski

Contributor

Jaroslaw Harezlak

Contributor

Releases (2)

Pick two releases to compare their code metrics.

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
1.0.1Latest
record
2017-05-30 · current release · diff ↗ ·
removed 4 exports
RidgePEER, RidgePEER.cv, crPEER, dist2sim

added 3 exports
riPEER, riPEERc, vizu.mat.factor
R
R 3.4.0 released · 2017-04-21
0.1.0
record
2016-11-25
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-11-25
Total releases: 2 / 10 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.3.3
Download size: 287 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("mdpeer")

Format

Karas, M., Brzyski, D., & Harezlak, J. (2017). mdpeer: Graph-Constrained Regression with Enhanced Regularization Parameters Selection (Version 1.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.mdpeer

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 mdpeer version 1.0.1 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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