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hisse  

Hidden State Speciation and Extinction
View on CRAN: Click here


Download and install hisse package within the R console
Install from CRAN:
install.packages("hisse")

Install from Github:
library("remotes")
install_github("cran/hisse")

Install by package version:
library("remotes")
install_version("hisse", "2.1.11")



Attach the package and use:
library("hisse")
Maintained by
Jeremy Beaulieu
[Scholar Profile | Author Map]
First Published: 2015-02-20
Latest Update: 2023-02-11
Description:
Sets up and executes a HiSSE model (Hidden State Speciation and Extinction) on a phylogeny and character sets to test for hidden shifts in trait dependent rates of diversification. Beaulieu and O'Meara (2016) .
How to cite:
Jeremy Beaulieu (2015). hisse: Hidden State Speciation and Extinction. R package version 2.1.11, https://cran.r-project.org/web/packages/hisse. Accessed 17 Apr. 2025.
Previous versions and publish date:
1.0 (2015-02-20 06:35), 1.1 (2015-06-17 00:42), 1.2 (2015-09-25 13:41), 1.3 (2015-10-03 07:58), 1.4 (2016-01-07 10:22), 1.5 (2016-03-19 14:33), 1.6 (2016-03-30 08:14), 1.7 (2016-06-14 08:29), 1.8.1 (2017-02-21 08:02), 1.8.2 (2017-04-05 00:39), 1.8.4 (2017-07-23 10:26), 1.8.5 (2017-10-10 18:57), 1.8.6 (2018-09-25 16:10), 1.8.7 (2018-10-19 00:40), 1.8.8 (2018-10-20 00:00), 1.8.9 (2018-11-06 17:20), 1.8 (2016-08-25 10:00), 1.9.0 (2019-01-28 17:40), 1.9.1 (2019-02-20 07:10), 1.9.4 (2019-05-10 22:00), 1.9.5 (2019-07-11 23:43), 1.9.6 (2019-12-06 19:00), 1.9.8 (2020-06-15 14:50), 1.9.9 (2020-10-20 22:00), 1.9.10 (2020-10-28 10:00), 1.9.13 (2021-01-19 16:40), 1.9.18 (2021-02-20 16:40), 1.9.19 (2021-05-15 08:10), 2.1.5 (2021-11-11 19:00), 2.1.6 (2021-11-16 09:20), 2.1.8 (2022-06-09 05:40), 2.1.9 (2022-06-15 17:40), 2.1.10 (2023-01-19 20:30)
Other packages that cited hisse R package
View hisse citation profile
Other R packages that hisse depends, imports, suggests or enhances
Complete documentation for hisse
Functions, R codes and Examples using the hisse R package
Some associated functions: AddFossilPoints . AddStratIntervals . GeoHiSSE . GeoHiSSE.old . GetAICWeights . GetFossils . MiSSE . MiSSEGreedy . MiSSENet . MuHiSSE . PlotMisseSpace . ProcessSimSample . ProcessSimStrat . PruneRedundantModels . SimulateGeoHiSSE . SummarizeMiSSEGreedy . TipCorrelation . TranslateParsMakerGeoHiSSE . generateMiSSEGreedyCombinations . hisse . hisse.old . hisseNull4.old . makeGeoHiSSELikelihood . makeHiSSELikelihood . marginRecon.old . marginReconGeoSSE . marginReconGeoSSE.old . marginReconHiSSE . marginReconMiSSE . marginReconMuHiSSE . modelAveRates . plotGeoHiSSE . plotHisse . plotMiSSE . plotMuHiSSE . simToPhylo . simulateHisse . supportRegion.old . supportRegionGeoSSE . supportRegionGeoSSE.old . supportRegionHiSSE . supportRegionMiSSE . supportRegionMuHiSSE . transMat . transMatMakerGeoHiSSE . transMatMakerHiSSE . transMatMakerMuHiSSE . 
Some associated R codes: FindGenerations.R . GenerateValues.R . GetModelWeight.R . PruneRedundantModels.R . fossilUtilities.R . geohisse.R . geohisse.old.R . geohisseLikelihood.R . getModelAveTipRates.R . hisse.R . hisse.old.R . hisseLikelihood.R . hisseNull4.old.R . marginRecon.R . misse.R . misseNet.R . muhisse.R . plotContMapHiSSE.R . plotHisse.R . simulateGeoHiSSE.R . simulateHisse.R . singleModels.R . startingPointGenerators.R . summarizeHisse.R . supportRegion.old.R . supportRegionGeoSSE.R . supportRegionGeoSSE.old.R . supportRegionHiSSE.R . supportRegionMiSSE.R . supportRegionMuHiSSE.R . tipCorrelation.R . transMat.old.R . transMatGeoHiSSE.R . transMatGeoHiSSE.old.R . transMatHiSSE.R . transMatMuHiSSE.R .  Full hisse package functions and examples
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