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:Martin R. Smith [aut, cre, cph], Curtis R. Congreve [cph, dtc], James C. Lamsdell [cph, dtc]

CongreveLamsdell2016_1.0.3.tar.gz
CongreveLamsdell2016_1.0.3.zip(r-4.7)CongreveLamsdell2016_1.0.3.zip(r-4.6)CongreveLamsdell2016_1.0.3.zip(r-4.5)
CongreveLamsdell2016_1.0.3.tgz(r-4.6-any)CongreveLamsdell2016_1.0.3.tgz(r-4.5-any)
CongreveLamsdell2016_1.0.3.tar.gz(r-4.7-any)CongreveLamsdell2016_1.0.3.tar.gz(r-4.6-any)
CongreveLamsdell2016_1.0.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
CongreveLamsdell2016/json (API)

# 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

Datasets:

On CRAN:

Conda:

4.18 score 1 stars 1 scripts 309 downloads 10 exports 36 dependencies

Last updated from:00ff991035. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK185
source / vignettesOK374
linux-release-x86_64OK188
macos-release-arm64OK94
macos-oldrel-arm64OK89
windows-develOK106
windows-releaseOK107
windows-oldrelOK111
wasm-releaseOK157

Exports:clInitializeTernaryQuartsclInitializeTernarySplitsclPlotAverageQuartetsclPlotAverageSplitsclPlotBestAverageSplitsclPlotQuartetsclPlotSplitsclPlotTheseAverageQuartetsclPlotTheseAverageSplitsclPlotTheseBestAverageSplits

Dependencies:base64encbslibcachemcliclueclustercommonmarkdigestfastmapfontawesomefsgluehtmltoolshttpuvjquerylibjsonlitelaterlatticelifecyclemagrittrmemoisemimeotelPlotToolspromisesR6rappdirsRcpprlangsassshinysourcetoolsspTernarywithrxtable

Analysing Congreve & Lamsdell matrices
Bayesian analysis | Parsimony analysis | Analysing output data | References
Rendered fromConduct-analyses.Rmdusingknitr::rmarkdown

Last update: 2024-02-29
Started: 2018-11-29

Resolution and accuracy in Congreve & Lamsdell matrices
Summary | Trees 1--10 | Trees 11--20 | Trees 21--30 | Trees 31--40 | Trees 41--50 | Trees 51--60 | Trees 61--70 | Trees 71--80 | Trees 81--90 | Trees 91--100 | References
Rendered fromCompare-methods.Rmdusingknitr::rmarkdown

Last update: 2024-02-22
Started: 2018-11-28

Node support efficacy in Congreve & Lamsdell matrices
Summary | Trees 1--10 | Trees 11--20 | Trees 21--30 | Trees 31--40 | Trees 41--50 | Trees 51--60 | Trees 61--70 | Trees 71--80 | Trees 81--90 | Trees 91--100 | References
Rendered fromCompare-node-supports.Rmdusingknitr::rmarkdown

Last update: 2019-12-19
Started: 2018-11-28

Readme and manuals

Help Manual

Help pageTopics
Consistency indicesclCI
Default colours for analyses.clColours
Initialize ternary plots for quartet plottingclInitializeTernaryQuarts clInitializeTernarySplits
100 simulated data matricesclMatrices clPhyDat
Plot resultsclPlotAverageQuartets clPlotAverageSplits clPlotBestAverageSplits clPlotQuartets clPlotSplits clPlotTheseAverageQuartets clPlotTheseAverageSplits clPlotTheseBestAverageSplits
Tree topology for matrix simulationclReferenceTree
Congreve and Lamsdell tree distancesclBootFreqPartitions clBootFreqQuartets clBootGcPartitions clBootGcQuartets clBremPartitions clBremQuartets clJackFreqPartitions clJackFreqQuartets clJackGcPartitions clJackGcQuartets clMkvPartitions clMkvQuartets clResults