Package: CongreveLamsdell2016 1.0.3
CongreveLamsdell2016: Distance Metrics for Trees Generated by Congreve and Lamsdell
Includes the 100 datasets simulated by Congreve and Lamsdell (2016) <doi:10.1111/pala.12236>, and analyses of the partition and quartet distance of reconstructed trees from the generative tree, as analysed by Smith (2019) <doi:10.1098/rsbl.2018.0632>.
Authors:
CongreveLamsdell2016_1.0.3.tar.gz
CongreveLamsdell2016_1.0.3.zip(r-4.5)CongreveLamsdell2016_1.0.3.zip(r-4.4)CongreveLamsdell2016_1.0.3.zip(r-4.3)
CongreveLamsdell2016_1.0.3.tgz(r-4.4-any)CongreveLamsdell2016_1.0.3.tgz(r-4.3-any)
CongreveLamsdell2016_1.0.3.tar.gz(r-4.5-noble)CongreveLamsdell2016_1.0.3.tar.gz(r-4.4-noble)
CongreveLamsdell2016_1.0.3.tgz(r-4.4-emscripten)CongreveLamsdell2016_1.0.3.tgz(r-4.3-emscripten)
CongreveLamsdell2016.pdf |CongreveLamsdell2016.html✨
CongreveLamsdell2016/json (API)
NEWS
# Install 'CongreveLamsdell2016' in R: |
install.packages('CongreveLamsdell2016', repos = c('https://ms609.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ms609/congrevelamsdell2016/issues
- clBootFreqPartitions - Congreve and Lamsdell tree distances
- clBootFreqQuartets - Congreve and Lamsdell tree distances
- clBootGcPartitions - Congreve and Lamsdell tree distances
- clBootGcQuartets - Congreve and Lamsdell tree distances
- clBremPartitions - Congreve and Lamsdell tree distances
- clBremQuartets - Congreve and Lamsdell tree distances
- clCI - Consistency indices
- clColours - Default colours for analyses.
- clJackFreqPartitions - Congreve and Lamsdell tree distances
- clJackFreqQuartets - Congreve and Lamsdell tree distances
- clJackGcPartitions - Congreve and Lamsdell tree distances
- clJackGcQuartets - Congreve and Lamsdell tree distances
- clMatrices - 100 simulated data matrices
- clMkvPartitions - Congreve and Lamsdell tree distances
- clMkvQuartets - Congreve and Lamsdell tree distances
- clPhyDat - 100 simulated data matrices
- clReferenceTree - Tree topology for matrix simulation
Last updated 9 months agofrom:00ff991035. Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 26 2024 |
R-4.5-win | OK | Oct 26 2024 |
R-4.5-linux | OK | Oct 26 2024 |
R-4.4-win | OK | Oct 26 2024 |
R-4.4-mac | OK | Oct 26 2024 |
R-4.3-win | OK | Oct 26 2024 |
R-4.3-mac | OK | Oct 26 2024 |
Exports:clInitializeTernaryQuartsclInitializeTernarySplitsclPlotAverageQuartetsclPlotAverageSplitsclPlotBestAverageSplitsclPlotQuartetsclPlotSplitsclPlotTheseAverageQuartetsclPlotTheseAverageSplitsclPlotTheseBestAverageSplits
Dependencies:base64encbslibcachemclicommonmarkcrayondigestfastmapfontawesomefsgluehtmltoolshttpuvjquerylibjsonlitelaterlatticelifecyclemagrittrmemoisemimePlotToolspromisesR6rappdirsRcppRcppHungarianrlangsassshinysourcetoolsspTernarywithrxtable
Analysing Congreve & Lamsdell matrices
Rendered fromConduct-analyses.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-02-29
Started: 2018-11-29
Resolution and accuracy in Congreve & Lamsdell matrices
Rendered fromCompare-methods.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-02-22
Started: 2018-11-28
Node support efficacy in Congreve & Lamsdell matrices
Rendered fromCompare-node-supports.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2019-12-19
Started: 2018-11-28
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Consistency indices | clCI |
Default colours for analyses. | clColours |
Initialize ternary plots for quartet plotting | clInitializeTernaryQuarts clInitializeTernarySplits |
100 simulated data matrices | clMatrices clPhyDat |
Plot results | clPlotAverageQuartets clPlotAverageSplits clPlotBestAverageSplits clPlotQuartets clPlotSplits clPlotTheseAverageQuartets clPlotTheseAverageSplits clPlotTheseBestAverageSplits |
Tree topology for matrix simulation | clReferenceTree |
Congreve and Lamsdell tree distances | clBootFreqPartitions clBootFreqQuartets clBootGcPartitions clBootGcQuartets clBremPartitions clBremQuartets clJackFreqPartitions clJackFreqQuartets clJackGcPartitions clJackGcQuartets clMkvPartitions clMkvQuartets clResults |