CRAN/E | sdmTMB

sdmTMB

Spatial and Spatiotemporal SPDE-Based GLMMs with 'TMB'

Installation

About

Implements spatial and spatiotemporal GLMMs (Generalized Linear Mixed Effect Models) using 'TMB', 'fmesher', and the SPDE (Stochastic Partial Differential Equation) Gaussian Markov random field approximation to Gaussian random fields. One common application is for spatially explicit species distribution models (SDMs). See Anderson et al. (2022) doi:10.1101/2022.03.24.485545.

Citation sdmTMB citation info
pbs-assess.github.io/sdmTMB/
github.com/pbs-assess/sdmTMB
Copyright inst/COPYRIGHTS sdmTMB copyright details
System requirements GNU make
Bug report File report

Key Metrics

Version 0.5.0
R ≥ 3.5.0
Published 2024-04-03 13 days ago
Needs compilation? yes
License GPL-3
CRAN checks sdmTMB results

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Maintainer

Maintainer

Sean C. Anderson

sean@seananderson.ca

Authors

Sean C. Anderson

aut / cre

Eric J. Ward

aut

Philina A. English

aut

Lewis A. K. Barnett

aut

James T. Thorson

aut / cph

(VAST author)

Joe Watson

ctb

(Censored Poisson)

Julia Indivero

ctb

(Vignette writing)

Jillian C. Dunic

ctb

Cole C. Monnahan

ctb / cph

(VAST contributor)

Mollie Brooks

ctb / cph

(glmmTMB author)

Ben Bolker

ctb / cph

(glmmTMB author)

Kasper Kristensen

ctb / cph

(TMB/glmmTMB author)

Martin Maechler

ctb / cph

(glmmTMB author)

Arni Magnusson

ctb / cph

(glmmTMB author)

Hans J. Skaug

ctb / cph

(glmmTMB author, SPDE barrier)

Anders Nielsen

ctb / cph

(glmmTMB author)

Casper Berg

ctb / cph

(glmmTMB author)

Koen van Bentham

ctb / cph

(glmmTMB author)

Olav Nikolai Breivik

ctb / cph

(SPDE barrier)

Simon Wood

ctb / cph

(mgcv: smoother prediction)

Paul-Christian Bürkner

ctb / cph

(brms: smoother matrix parsing)

His Majesty the King in Right of Canada
as represented by the Minister of the Department of Fisheries
Oceans

cph

Material

NEWS
Reference manual
Package source

In Views

SpatioTemporal

Vignettes

sdmTMB model description

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

sdmTMB archive

Depends

R ≥ 3.5.0

Imports

assertthat
clisymbols
cli
fmesher
fishMod
generics
graphics
lifecycle
lme4
Matrix
methods
mgcv
mvtnorm
nlme
rlang
stats
TMB ≥ 1.8.0

Suggests

DHARMa
dplyr
effects ≥ 4.0-1
estimability
emmeans ≥1.4
future
future.apply
ggeffects
ggforce
glmmTMB
ggplot2
knitr
rmarkdown
sf
splancs
testthat
tibble
visreg

LinkingTo

RcppEigen
TMB

Reverse Suggests

ggeffects