magi

1.2.5

MAnifold-Constrained Gaussian Process Inference

0packages depend

3.2Kdownloads / year

63.0%test coverage

9/13checks pass

Overview

About

Maintained by Shihao YangFirst published 2021-07-279 releasesCRAN page ↗

Provides fast and accurate inference for the parameter estimation problem in Ordinary Differential Equations, including the case when there are unobserved system components. Implements the MAGI method (MAnifold-constrained Gaussian process Inference) of Yang, Wong, and Kou (2021) doi:10.1073/pnas.2020397118. A user guide is provided by the accompanying software paper Wong, Yang, and Kou (2024) doi:10.18637/jss.v109.i04.

Install

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

install.packages("magi", 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-magi

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

# 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-magi

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-magi

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

4NOTE9OK

Failing flavors

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

Slowest check: 9.3 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 1.13

63.0%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-07-16
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 29 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 35%

Downloads

3.2K

CRAN downloads in the past year

Rank #13,706 · ~9/day · ~265/mo

Releases R versions

Daily download trend is not available in this view yet.

25830 days

79590 days

3.2K1 year

Compare downloads with other packages →

Also on450 r2u35 autocran38 c2d4u

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6.0

Imports (6)

Rcpp gridExtra gridBasegridmethodsdeSolve

LinkingTo (4)

Rcpp RcppArmadillo BH roptim

Suggests (7)

testthat mvtnorm covr knitrMASSrmarkdown markdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Shihao Yang

Author, Maintainer

Authors (2)

Shihao Yang

Author, Maintainer

Samuel W.K. Wong

Author

Contributors (1)

S.C. Kou

Contributor, Copyright holder · added in 1.1.3

S.C. Kou

Contributor, Copyright holder · added in 1.1.3

Listed in earlier versions (2)

Patrick Wieschollek

no longer listed · 1.0.0

Tobias Wood

no longer listed · 1.0.0

Package Timeline

9 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.2.5Latest
2025-10-22 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.2.4
2024-06-22 · diff ↗
1.2.3
2024-05-05 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.2.2
2023-04-25 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.2.1
2022-12-19 · diff ↗
1.2.0
2022-08-29 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.1.5
2022-01-14 · diff ↗
1.1.3
2022-01-11 · diff ↗
unarchivedReturned to CRAN
2022-01-11
archivedRemoved from CRAN
2021-08-01
check problems were not corrected in repeated resubmissions
1.0.0
2021-07-27

Show 1 earlier events

R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-07-27
Total releases: 9 / 5 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.6.0
Bundled data: 0.5 KB / 1 file
Download size: 254 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Differential Equations

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