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✨
card.svg |card.png
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

Datasets:

On CRAN:

Conda:

4.18 score 1 stars 175 downloads 10 exports 36 dependencies

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

TargetResultTimeFilesSyslog
linux-devel-x86_64OK194
source / vignettesOK433
linux-release-x86_64OK217
macos-release-arm64OK143
macos-oldrel-arm64OK152
windows-develOK125
windows-releaseOK111
windows-oldrelOK119
wasm-releaseOK153

Exports:clInitializeTernaryQuartsclInitializeTernarySplitsclPlotAverageQuartetsclPlotAverageSplitsclPlotBestAverageSplitsclPlotQuartetsclPlotSplitsclPlotTheseAverageQuartetsclPlotTheseAverageSplitsclPlotTheseBestAverageSplits

Dependencies:base64encbslibcachemcliclueclustercommonmarkdigestfastmapfontawesomefsgluehtmltoolshttpuvjquerylibjsonlitelaterlatticelifecyclemagrittrmemoisemimeotelPlotToolspromisesR6rappdirsRcpprlangsassshinysourcetoolsspTernarywithrxtable

Analysing Congreve & Lamsdell matrices

Martin R. Smith [email protected]

Rendered fromConduct-analyses.Rmdusingknitr::rmarkdownon Jun 03 2026.

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

Resolution and accuracy in Congreve & Lamsdell matrices

Martin R. Smith [email protected]

Rendered fromCompare-methods.Rmdusingknitr::rmarkdownon Jun 03 2026.

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

Node support efficacy in Congreve & Lamsdell matrices

Martin R. Smith [email protected]

Rendered fromCompare-node-supports.Rmdusingknitr::rmarkdownon Jun 03 2026.

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