Package: mrIML 2.2.0

mrIML: Multi-Response (Multivariate) Interpretable Machine Learning

Builds and interprets multi-response machine learning models using 'tidymodels' syntax. Users can supply a tidy model, and 'mrIML' automates the process of fitting multiple response models to multivariate data and applying interpretable machine learning techniques across them. For more details see Fountain-Jones (2021) <doi:10.1111/1755-0998.13495> and Fountain-Jones et al. (2024) <doi:10.22541/au.172676147.77148600/v1>.

Authors:Nick Fountain-Jones [aut, cre, cph], Ryan Leadbetter [aut], Gustavo Machado [aut], Chris Kozakiewicz [aut], Nick Clark [aut]

mrIML_2.2.0.tar.gz
mrIML_2.2.0.zip(r-4.7)mrIML_2.2.0.zip(r-4.6)mrIML_2.2.0.zip(r-4.5)
mrIML_2.2.0.tgz(r-4.6-any)mrIML_2.2.0.tgz(r-4.5-any)
mrIML_2.2.0.tar.gz(r-4.7-any)mrIML_2.2.0.tar.gz(r-4.6-any)
mrIML_2.2.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
mrIML/json (API)

# Install 'mrIML' in R:

install.packages('mrIML', repos = c('https://nickfountainjones.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/nickfountainjones/mriml/issues

Datasets:

mrIML_bird_parasites_LM - An example mrIML model fit to MRFcov::Bird.parasites
mrIML_bird_parasites_RF - An example mrIML model fit to MRFcov::Bird.parasites

On CRAN:

6.84 score 10 stars 23 scripts 204 downloads 16 exports 108 dependencies

Last updated from:81c48bd47d. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	227
source / vignettes	OK	345
linux-release-x86_64	OK	221
macos-release-arm64	OK	209
macos-oldrel-arm64	OK	304
windows-devel	OK	172
windows-release	OK	153
windows-oldrel	OK	155
wasm-release	OK	168

Exports:%>%filterRareCommon mrBootstrap mrCoOccurNet mrCovar mrFlashlight mrIMLperformance mrIMLpredicts mrInteractions mrPdPlotBootstrap mrPerformancePlot mrShapely mrVip mrVipPCA readSnpsPed resist_components

Dependencies:base64enc bslib cachem class cli clock codetools cpp11 data.table diagram dials DiceDesign digest dplyr evaluate farver fastmap finetune flashlight fontawesome fs furrr future future.apply GauPro generics ggplot2 globals glue gower gtable hardhat highr hstats htmltools ipred isoband jquerylib jsonlite KernSmooth knitr labeling lattice lava lbfgs lifecycle listenv lubridate magrittr MASS Matrix memoise MetricsWeighted mime mixopt modelenv nnet numDeriv parallelly parsnip patchwork pillar pkgconfig prettyunits prodlim progressr purrr R6 rappdirs RColorBrewer Rcpp RcppArmadillo recipes rlang rmarkdown rpart rpart.plot rsample S7 sass scales sfd shape slider sparsevctrs splitfngr SQUAREM stringi stringr survival tailor tibble tidyr tidyselect timechange timeDate tinytex tune tzdb utf8 vctrs viridisLite warp withr workflows xfun yaml yardstick

mrIML

Fitting a mrIML model | Model performance and comparison | Interogating models | Bootstrapping for uncertainty | Checking for interactions

Rendered frommrIML.Rmdusingknitr::rmarkdown

Last update: 2025-05-08
Started: 2025-05-02

Help page	Topics
A cbind variation that ignores objects with zero dimention	cbind
Filter rare response variables from the data	filterRareCommon
Bootstrap mrIML model predictions	mrBootstrap
Generate a MrIML co-occurrence network	mrCoOccurNet
Investigate partial dependencies of a covariate for mrIML JSDMs (Joint Species Distribution Models)	mrCovar
Convert mrIML object into a 'flashlight' object	mrFlashlight
An example mrIML model fit to MRFcov::Bird.parasites	mrIML_bird_parasites_LM
An example mrIML model fit to MRFcov::Bird.parasites	mrIML_bird_parasites_RF
Calculate general performance metrics of a mrIML model	mrIMLperformance
Generates a multi-response predictive model	mrIMLpredicts
Calculate and visualize feature interactions	mrInteractions
Bootstrap Partial Dependence Plots	mrPdPlotBootstrap
Plot Model Performance Comparison	mrPerformancePlot
Generate SHAP (SHapley Additive exPlanations) Plots for Multiple Models and Responses	mrShapely
Calculates and helps interpret variable importance for 'mrIML' models.	mrVip
Principal Component Analysis of mrIML variable importance	mrVipPCA
Conversion to single column per locus from plink file via LEA functionality	readSnpsPed
Calculates resistance components from a list of pairwise resistance surfaces	resist_components

Package: mrIML 2.2.0

mrIML: Multi-Response (Multivariate) Interpretable Machine Learning

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Help Manual

Usage by other packages (reverse dependencies)