Package: FossilSim 2.4.0
FossilSim: Simulation and Plots for Fossil and Taxonomy Data
Simulating and plotting taxonomy and fossil data on phylogenetic trees under mechanistic models of speciation, preservation and sampling.
Authors:
FossilSim_2.4.0.tar.gz
FossilSim_2.4.0.zip(r-4.5)FossilSim_2.4.0.zip(r-4.4)FossilSim_2.4.0.zip(r-4.3)
FossilSim_2.4.0.tgz(r-4.4-any)FossilSim_2.4.0.tgz(r-4.3-any)
FossilSim_2.4.0.tar.gz(r-4.5-noble)FossilSim_2.4.0.tar.gz(r-4.4-noble)
FossilSim_2.4.0.tgz(r-4.4-emscripten)FossilSim_2.4.0.tgz(r-4.3-emscripten)
FossilSim.pdf |FossilSim.html✨
FossilSim/json (API)
NEWS
# Install 'FossilSim' in R: |
install.packages('FossilSim', repos = c('https://phylotastic.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/fossilsim/fossilsim/issues
Last updated 3 days agofrom:1e26ef2084. Checks:OK: 3 ERROR: 4. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Sep 05 2024 |
R-4.5-win | ERROR | Sep 05 2024 |
R-4.5-linux | ERROR | Sep 05 2024 |
R-4.4-win | ERROR | Sep 05 2024 |
R-4.4-mac | ERROR | Sep 05 2024 |
R-4.3-win | OK | Sep 05 2024 |
R-4.3-mac | OK | Sep 05 2024 |
Exports:as.fossilsas.taxonomybeast.fbd.formatcount.fossilscount.fossils.binnedfbdrangefossilsfossils.to.BEAST.constraintsfossils.to.BEAST.start.treefossils.to.paleotree.recordfossils.to.pyrateget_fbdrange_from_fileget.tip.descsis.fossilsis.taxonomypaleotree.record.to.fossilsplace.fossilsprune.fossil.tipsprune.fossilsrangeplot.asymmetricreconcile.fossils.taxonomyreconstructed.tree.fossils.objectsremove.stem.fossilsremove.stem.lineagessampled.tree.from.combinedSAtreeSAtree.from.fossilssim.anagenetic.speciessim.cryptic.speciessim.extant.samplessim.fbd.agesim.fbd.rateshift.taxasim.fbd.taxasim.fossils.environmentsim.fossils.intervalssim.fossils.poissonsim.gradientsim.interval.agessim.taxonomysim.tip.samplessim.trait.valuesspecies.endspecies.startsubsample.fossils.oldestsubsample.fossils.oldest.and.youngestsubsample.fossils.uniformsubsample.fossils.youngesttaxonomytree.max
Dependencies:apeaplotclicolorspacecpp11digestdplyrfansifarverfsgenericsggfunggplot2ggplotifyggtreegluegridGraphicsgtableisobandjsonlitelabelinglatticelazyevallifecyclemagrittrMASSMatrixmgcvmunsellnlmepatchworkpillarpkgconfigpurrrR6RColorBrewerRcpprlangscalesstringistringrtibbletidyrtidyselecttidytreetreeioutf8vctrsviridisLitewithryulab.utils
Converting from and to paleotree format
Rendered frompaleotree.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2018-09-17
Started: 2018-06-15
Exporting sampled ancestor trees
Rendered fromSAtree.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2021-04-20
Started: 2018-06-15
The FossilSim package
Rendered fromintro.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2021-04-05
Started: 2018-06-29
Simulating fossils
Rendered fromfossils.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2018-10-04
Started: 2018-06-29
Simulating taxonomy
Rendered fromtaxonomy.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2018-09-18
Started: 2018-06-29
Simulating trees from the fossilized birth-death process
Rendered fromsimfbd.Rmd
usingknitr::rmarkdown
on Sep 05 2024.Last update: 2019-09-26
Started: 2018-06-30