Package: fibre 0.0.0.9000

fibre: Fast Evolutionary Trait Modelling on Phylogenies using Branch Regression Models

Implements Phylogenetic Branch Regression models which allow for flexible and versatile models of evolution along a phylogeny. The model can be used to detect shifts in rates of evolution along branches. The model uses a continuous and linear model structure and so can be easily combined with other non-phylogenetic statistical structures, as long as they are implemented using the R package INLA. One major uses of this are to condition on phylogeny in a standard regression between two traits, thus 'accounting' for phylogenetic structure in the response variable, similar to how pgls is used but allowing for a more flexible phylogenetic model. This also allows the phylogenetic model to be combined with the spatial models that INLA excels at (and with comparable flexibility to those spatial models).

Authors:Russell Dinnage [aut, cre]

fibre_0.0.0.9000.tar.gz
fibre_0.0.0.9000.zip(r-4.5)fibre_0.0.0.9000.zip(r-4.4)fibre_0.0.0.9000.zip(r-4.3)
fibre_0.0.0.9000.tgz(r-4.4-any)fibre_0.0.0.9000.tgz(r-4.3-any)
fibre_0.0.0.9000.tar.gz(r-4.5-noble)fibre_0.0.0.9000.tar.gz(r-4.4-noble)
fibre_0.0.0.9000.tgz(r-4.4-emscripten)fibre_0.0.0.9000.tgz(r-4.3-emscripten)
fibre.pdf |fibre.html✨
fibre/json (API)

Peer review:

Bug tracker:https://github.com/rdinnager/fibre/issues

On CRAN:

29 exports 3 stars 0.49 score 119 dependencies 31 scripts

Last updated 10 months agofrom:f62fd4a6f0. Checks:OK: 1 WARNING: 6. Indexed: yes.

Exports::=.data%>%as_labelas_nameaugmentautoplotbrebre_brownianbre_second_orderdefault_cameradefault_lightenquoenquosevo_autodecoderfibrefibre_formula_blueprintget_acesget_camera_positionget_ratesget_tcesget_tipsglanceload_bird_beak_modelload_modelresdf_netsimulate_traitstidy

Dependencies:apeaplotassertthatbase64encbitbit64callrclassclassIntcliclusterGenerationcodacodetoolscolorspacecombinatcorocorpcorcpp11cubatureDBIDEoptimdescdigestdoParalleldplyre1071ellipsisevaluateexpmfansifarverfastmapfastmatchfmesherforeachfsgenericsggfunggplot2ggplotifyggtreeglmnetgluegridGraphicsgtablehardhathighrhtmltoolsigraphinlabruisobanditeratorsivsjsonliteKernSmoothknitrlabelinglatticelazyevallifecyclemagrittrmapsMASSMatrixMatrixModelsMCMCglmmmgcvmnormtmunsellnlmenumDerivoptimParallelpatchworkphangornphyfphytoolspillarpkgconfigplyrprocessxproxypspurrrquadprogR6RColorBrewerRcppRcppEigenreprrlangs2safetensorsscalesscatterplot3dsfshapeskimrspstringistringrsurvivaltensorAterratibbletidyrtidyselecttidytreetorchtreeiounitsutf8vctrsviridisLitewithrwkxfunyamlyulab.utilszeallot