Package: evolved 1.0.0

Matheus Januario
evolved: Open Software for Teaching Evolutionary Biology at Multiple Scales Through Virtual Inquiries
"Evolutionary Virtual Education" - 'evolved' - provides multiple tools to help educators (especially at the graduate level or in advanced undergraduate level courses) apply inquiry-based learning in general evolution classes. In particular, the tools provided include functions that simulate evolutionary processes (e.g., genetic drift, natural selection within a single locus) or concepts (e.g. Hardy-Weinberg equilibrium, phylogenetic distribution of traits). More than only simulating, the package also provides tools for students to analyze (e.g., measuring, testing, visualizing) datasets with characteristics that are common to many fields related to evolutionary biology. Importantly, the package is heavily oriented towards providing tools for inquiry-based learning - where students follow scientific practices to actively construct knowledge. For additional details, see package's vignettes.
Authors:
evolved_1.0.0.tar.gz
evolved_1.0.0.zip(r-4.7)evolved_1.0.0.zip(r-4.6)evolved_1.0.0.zip(r-4.5)
evolved_1.0.0.tgz(r-4.6-any)evolved_1.0.0.tgz(r-4.5-any)
evolved_1.0.0.tar.gz(r-4.7-any)evolved_1.0.0.tar.gz(r-4.6-any)
evolved_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
evolved/json (API)
NEWS
| # Install 'evolved' in R: |
| install.packages('evolved', repos = c('https://mjanuario.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/mjanuario/evolved/issues
Pkgdown/docs site:https://mjanuario.github.io
- ammonoidea_fossil - Occurrences of ammonoid fossils
- birds_spp - Birds species list
- cytOxidase - Cytochrome Oxidase sequences
- data_whales - Whale body size and speciation rates
- dinos_fossil - Occurrence of dinosaur fossils
- mammals_fossil - Occurrences of mammal fossils
- mammals_spp - Mammals species list
- timeseries_fossil - Fossil Time series
- trilob_fossil - Occurrence of trilobite fossils
- whale_phylo - Whale Phylogeny
biodiversity-sciencecomparative-methodsdata-driven-educationevolutionary-biologyinquiry-based-learningmacroevolutionpaleobiologyphylogeneticspopulation-geneticsscience-educationsimulation-based-learning
Last updated from:300aa21549. Checks:7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | NOTE | 155 | ||
| source / vignettes | OK | 261 | ||
| linux-release-x86_64 | NOTE | 150 | ||
| macos-release-arm64 | NOTE | 191 | ||
| macos-oldrel-arm64 | NOTE | 224 | ||
| windows-devel | NOTE | 131 | ||
| windows-release | NOTE | 94 | ||
| windows-oldrel | NOTE | 97 | ||
| wasm-release | OK | 130 |
Exports:calcFossilDivTTcheckAndFixUltrametriccountSeqDiffsestimateSpeciationfitCRBDis.ProteinSeqlttPlotNatSelSimOneGenHWSimplotNatSelplotPaintedWhalesplotProteinSeqplotRawFossilOccsplotWFDriftsimulateBirthDeathRichsimulateTreeWFDriftSim
Dependencies:apecliclusterGenerationcodacodetoolscombinatcpp11DEoptimdeSolvedigestdiversitreedoParallelexpmfastmatchforeachgenericsglueigraphiteratorslatticelifecyclemagrittrmapsMASSMatrixmnormtnlmenumDerivoptimParallelphangornphytoolspkgconfigquadprogRcpprlangscatterplot3dsubplexvctrs
Birth-death models and deep time
Rendered frombirthdeath_deeptime.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-05-17
Started: 2024-04-20
Birth-death models and molecular phylogenies
Rendered frombirthdeath_phylogenies.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-11-28
Started: 2024-05-09
Clocks and Rocks
Rendered fromrocks_and_clocks.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-11-28
Started: 2023-12-24
DNA sequence evolution
Rendered fromdeeptime_clocks.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2025-12-01
Started: 2024-03-26
Introduction to the fossil record
Rendered fromdeeptime_rocks.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-11-28
Started: 2024-03-26
If you never used R before...
Rendered frominstall_r.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2025-11-28
Started: 2025-11-28
Introduction to R
Rendered fromintro_r.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2025-12-17
Started: 2025-12-17
Phylogenies and diversification
Rendered fromphylogenies_and_diversification.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-05-17
Started: 2024-01-08
Sampling alleles, genetic drift and effective population size
Rendered frompopgen_drift.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2025-12-17
Started: 2024-03-26
Introduction to evolutionary genetics
Rendered frompopgen_intro.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-05-17
Started: 2024-03-26
Tools for population genetics
Rendered frompopulation_genetics.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-03-26
Started: 2023-05-18
Allele frequency change and selection
Rendered frompopgen_selection.Rmdusingknitr::rmarkdownon May 31 2026.Last update: 2024-11-28
Started: 2024-03-26