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spaMM

4.7.17Package record

Mixed-Effect Models, with or without Spatial Random Effects

6packages dependsuggested by 1
59Kdownloads / year
0.0%test coverage
13/13flavors OK

Overview

About
Maintained by François RoussetCRAN page ↗Repository ↗

Inference based on models with or without spatially-correlated random effects, multivariate responses, or non-Gaussian random effects (e.g., Beta). Variation in residual variance (heteroscedasticity) can itself be represented by a mixed-effect model. Both classical geostatistical models (Rousset and Ferdy 2014 doi:10.1111/ecog.00566), and Markov random field models on irregular grids (as considered in the 'INLA' package, https://www.r-inla.org), can be fitted, with distinct computational procedures exploiting the sparse matrix representations for the latter case and other autoregressive models. Laplace approximations are used for likelihood or restricted likelihood. Penalized quasi-likelihood and other variants discussed in the h-likelihood literature (Lee and Nelder 2001 doi:10.1093/biomet/88.4.987) are also implemented.

Changes in 4.7.17

BROKEN LINKS

  • The gitlab server that hosted the reference page for the package has been closed and replaced.

FUTURE COMPATIBILITY ISSUES

  • C++ code adjusted to be compatible with future use of Eigen 5.0.1 by RcppEigen package.

NEW FEATURES

  • More efficient (and presumably less buggy) 'confint' method for multinomial-logit fits.
  • New argument 'keep_fixed' of fixef() extractor method for objects returned by spaMM fitting functions.

FIXED BUGS

  • Fits could fail if a precision matrix was provided for a corrMatrix term, as a result of changes in the previous version.
  • Bug that made the Levenberg-Marquardt-like algorithm occasionally converge less fast.
  • Spurious warnings that could occur in DHGLMs, as a result of changes in the previous version.

From inst/NEWS.Rd in the release

Install

Health

CRAN checks
13OK
Slowest check: 12.5 min · r-oldrel-windows-x86_64
Status changes
  • OK13 OK2026-10-17
  • WARNING12 OK, 1 WARNING2026-10-01
  • OK13 OK2026-08-04
  • NOTE12 OK, 1 NOTE2026-08-01
  • OK13 OK2026-07-18
Show 13 earlier changesHide 13 earlier changes
  • WARNING12 OK, 1 WARNING2026-07-16
  • OK13 OK2026-07-04
  • WARNING12 OK, 1 WARNING2026-07-03
  • OK13 OK2026-06-19
  • WARNING12 OK, 1 WARNING2026-06-17
  • OK12 OK2026-04-25
  • NOTE11 OK, 3 NOTE2026-04-22
  • ERROR10 OK, 2 NOTE, 1 WARNING, 1 ERROR2026-04-18
  • WARNING11 OK, 2 NOTE, 1 WARNING2026-04-16
  • NOTE11 OK, 3 NOTE2026-04-10
  • ERROR10 OK, 3 NOTE, 1 ERROR2026-04-09
  • WARNING6 OK, 7 NOTE, 1 WARNING2026-03-21
  • NOTE11 OK, 3 NOTE2026-03-10
Advisories

none known

How this is measured·How advisories are found

Documentation

In release 4.7.17
READMENoVignettesYes · 1 · staticNEWSYes · mentions 4.7.17Citation fileYes · cites a publicationWebsitenot declared in DESCRIPTION
Help pages
125 (3 internal)includes a package overview page
Examples that run
79%88 run in a plain check (3 of them under a condition) · 16 never run · 8 hold no code
Exported functions with examples
67%
Documented parameters
83%
Return-value docs
67%
Help pages citing references
44%
Vignettes (1)
How these are measured

Downloads

59K
CRAN downloads in the past year
Rank #1,683 · ~162/day · ~4.9K/mo
Daily download trend is not available in this view yet.
5K30 days
13.1K90 days
59K1 year
Compare downloads with other packages →
Also on660 r2u4 autocran205 c2d4u
How downloads are counted

Repository

gitlab.in2p3.fr/francois.rousset/spamm-ref ↗
0Stars
0Forks
0Open issues
0Open PRs
0Releases
99Commits
2Commit identities
99 commits · Last activity 2026-10-14
Responsiveness
not measured
Earlier repositories
How these are measured
PracticesBeta

Checks run against gitlab.in2p3.fr/francois.rousset/spamm-ref on 2026-10-21.

No development-tooling practices detected in the upstream repository.

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies
36 external dependencies (excludes base and recommended)

Installing spaMM adds 24 packages (14 with compiled code, 11 MB of source tarballs). Heaviest: nloptr 2.1 MB, Rcpp 1.8 MB, RcppEigen 1.7 MB.

Depends (1)
R >= 3.5.0
Imports (19)
methodsstatsgraphicsMatrixproxyRcpp (>= 0.12.10)nlmenloptrminqapbapplycligmpROIbootgeometrynumDerivbackportsreformulasmatrixStats
LinkingTo (2)
RcppRcppEigen
Suggests (22)
MASSmapstestthatrcddforeachfuturefuture.applyRANNInfusionIsoriXblackbox (>= 1.1.25)RSpectraROI.plugin.glpklme4rsaemultilevelagridatfmesherknitrrmarkdowntweedietweedieDistr
Enhances (0)
none
Dependency license breakdown →
Reverse dependencies
6direct
0indirect
Imports 6
Suggested by 1
Depends, Imports or LinkingTo, most downloaded first
IsoriXblackboxInfusioninferferencespatialGENCC
Suggests, most downloaded first
DHARMa
How these are counted

Code & Tests

Datasets

People & History

People (3)
François Rousset ORCID iD
Author, Maintainer since at least 1.1 (2014), Copyright holder
Alexandre Courtiol ORCID iD
Author · added in 1.7.1
Jean-Baptiste Ferdy
Author, Copyright holder
Listed in earlier versions (2)
GSL authors
no longer listed · 1.6.2 to 3.13.0
Dirk Eddelbuettel
no longer listed · 1.9.0 to 1.10.0
Releases (63)

Pick two releases to compare their code metrics.

  • 4.7.17Latest
    record
    2026-10-09 · current release · diff ↗ ·
    removed 1 export
    .evalWrapper
    ·
    listed once in CRAN's queue
    Seen in one reading of CRAN's incoming queue, at 2026-10-09 00:53 UTC, so it stayed less than the time between readings.
  • 4.7.0
    record
    2026-09-09 · diff ↗
  • R
    R 4.6.0 released · 2026-04-24
  • 4.6.65
    record
    2026-04-06 · diff ↗ ·
    removed 1 export
    .setCluster
  • 4.6.1
    record
    2025-06-27 · diff ↗
  • R
    R 4.5.0 released · 2025-04-11
  • 4.5.0
    record
    2024-06-10 · diff ↗
  • R
    R 4.4.0 released · 2024-04-24
  • 4.4.16
    record
    2023-12-20 · diff ↗
  • 4.4.0
    record
    2023-08-30 · diff ↗
  • 4.3.20
    record
    2023-07-06 · diff ↗
  • 4.3.0
    record
    2023-05-22 · diff ↗
  • R
    R 4.3.0 released · 2023-04-21
  • 4.2.1
    record
    2023-03-03 · diff ↗ ·
    added 1 export
    .setCluster
  • 4.1.20
    record
    2022-12-12 · diff ↗
  • 4.1.0
    record
    2022-11-18 · diff ↗
Show 61 earlier eventsHide 61 earlier events
Across CRAN, the median accepted release of the past year spent 26 hours in the queue, 90% under 11 days.How queue time is measured

Package metadata

First published
2013-12-15
Total releases
63 / 13 yrs
License
CeCILL-2
Minimum R
≥ 3.5.0
Bundled data
470 KB / 18 files
Download size
1.6 MB
Appears in task views
Mixed, Multilevel, and Hierarchical Models in RAnalysis of Spatial Data

Cite

Cite this package

Run in R for the authors' entry:

citation("spaMM")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1111/ecog.00566.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

APA

Balamuta, J. J. (2026). R Observatory: Metrics for spaMM version 4.7.17 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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