Package: Hmsc 3.3-4
Otso Ovaskainen
Hmsc: Hierarchical Model of Species Communities
Hierarchical Modelling of Species Communities (HMSC) is a model-based approach for analyzing community ecological data. This package implements it in the Bayesian framework with Gibbs Markov chain Monte Carlo (MCMC) sampling (Tikhonov et al. (2020) <doi:10.1111/2041-210X.13345>).
Authors:
Hmsc_3.3-4.tar.gz
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Hmsc.pdf |Hmsc.html✨
Hmsc/json (API)
NEWS
| # Install 'Hmsc' in R: |
| install.packages('Hmsc', repos = c('https://hmsc-r.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/hmsc-r/hmsc/issues
- TD - Simulated data and a fitted Hmsc model for a small species community.
Last updated 12 days agofrom:6dcc9306fb. Checks:1 OK, 8 WARNING. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Mar 20 2025 |
| R-4.5-win | WARNING | Mar 20 2025 |
| R-4.5-mac | WARNING | Mar 20 2025 |
| R-4.5-linux | WARNING | Mar 20 2025 |
| R-4.4-win | WARNING | Mar 20 2025 |
| R-4.4-mac | WARNING | Mar 20 2025 |
| R-4.4-linux | WARNING | Mar 20 2025 |
| R-4.3-win | WARNING | Mar 20 2025 |
| R-4.3-mac | WARNING | Mar 20 2025 |
Exports:alignPosteriorbiPlotcomputeAssociationscomputeDataParameterscomputePredictedValuescomputeSAIRcomputeVariancePartitioningcomputeWAICconstructGradientconstructKnotsconvertToCodaObjectcoralCombinecoralGetRareSpeciesPriorscoralGetXDataExtcoralPlotBetacoralPredictcoralPreprocesscoralSplitToBatchescoralTraincreatePartitionevaluateModelFitgetPostEstimateHmscHmscRandomLevelimportPosteriorFromHPCpcomputePredictedValuesplotBetaplotGammaplotGradientplotVariancePartitioningpoolMcmcChainspredictLatentFactorprepareGradientsampleMcmcsetPriors
Dependencies:abindapeBayesLogitclicodacolorspacedigestdotCall64fansifarverfieldsFNNggplot2gluegtableisobandlabelinglatticelifecyclemagrittrmapsMASSMatrixMatrixModelsmatrixStatsmcmcMCMCpackmgcvmunsellnlmennetpillarpkgconfigplyrpracmapROCquantregR6RColorBrewerRcpprlangscalesspspamSparseMstatmodsurvivaltibbletruncnormutf8vctrsviridisLitewithr
Getting started with HMSC-R: high-dimensional multivariate models
Rendered fromvignette_3_multivariate_high.pdf.asisusingR.rsp::asison Mar 20 2025.Last update: 2019-07-24
Started: 2019-04-23
Getting started with HMSC-R: low-dimensional multivariate models
Rendered fromvignette_2_multivariate_low.pdf.asisusingR.rsp::asison Mar 20 2025.Last update: 2019-07-24
Started: 2019-04-23
Getting started with HMSC-R: spatial models
Rendered fromvignette_4_spatial.pdf.asisusingR.rsp::asison Mar 20 2025.Last update: 2019-08-27
Started: 2019-08-27
Getting started with HMSC-R: univariate models
Rendered fromvignette_1_univariate.pdf.asisusingR.rsp::asison Mar 20 2025.Last update: 2019-07-24
Started: 2019-04-23
Testing the performance of Hmsc with simulated data
Rendered fromvignette_5_performance.pdf.asisusingR.rsp::asison Mar 20 2025.Last update: 2019-12-17
Started: 2019-12-17
