Package: AnthropMMD 4.1.0

AnthropMMD: An R Package for the Mean Measure of Divergence (MMD)

Offers a graphical user interface for the calculation of the mean measure of divergence, with facilities for trait selection and graphical representations <doi:10.1002/ajpa.23336>.

Authors:Frédéric Santos [aut, cre]

AnthropMMD_4.1.0.tar.gz
AnthropMMD_4.1.0.zip(r-4.7)AnthropMMD_4.1.0.zip(r-4.6)AnthropMMD_4.1.0.zip(r-4.5)
AnthropMMD_4.1.0.tgz(r-4.6-any)AnthropMMD_4.1.0.tgz(r-4.5-any)
AnthropMMD_4.1.0.tar.gz(r-4.7-any)AnthropMMD_4.1.0.tar.gz(r-4.6-any)
AnthropMMD_4.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
AnthropMMD/json (API)

# Install 'AnthropMMD' in R:

install.packages('AnthropMMD', repos = c('https://frederic-santos.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://gitlab.com/f-santos/anthropmmd

Datasets:

absolute_freqs - A toy example dataset for mean measures of divergence, in a table format
toyMMD - A toy example dataset for mean measures of divergence

On CRAN:

3.90 score 16 scripts 438 downloads 9 exports 125 dependencies

Last updated from:28258d4dca. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	OK	241
source / vignettes	OK	227
linux-release-x86_64	OK	220
macos-release-arm64	OK	114
macos-oldrel-arm64	OK	94
windows-devel	OK	152
windows-release	OK	135
windows-oldrel	OK	152
wasm-release	OK	141

Exports:binary_to_table mmd mmd_boot plot.anthropmmd_boot plot.anthropmmd_result select_traits start_mmd StartMMD table_relfreq

Dependencies:backports base64enc bit bit64 boot broom bslib cachem checkmate class cli clipr cluster codetools colorspace commonmark cpp11 crayon data.table digest doParallel dplyr e1071 ellipse evaluate farver fastmap fontawesome forcats foreach foreign Formula fs gdata generics ggplot2 glmnet glue gridExtra gtable gtools haven highr Hmisc hms htmlTable htmltools htmlwidgets httpuv isoband iterators jomo jquerylib jsonlite knitr labeling later lattice lifecycle lme4 magrittr MASS Matrix memoise mice mime minqa mitml nlme nloptr nnet nnls numDeriv ordinal otel pan pillar pkgconfig plotrix polynom prettyunits progress promises proxy purrr R6 rappdirs rbibutils RColorBrewer Rcpp RcppEigen Rdpack readr reformulas rlang rmarkdown rpart rstudioapi S7 sass scales scatterplot3d shape shiny smacof sourcetools stringi stringr survival tibble tidyr tidyselect tinytex tzdb ucminf utf8 vctrs viridisLite vroom weights withr wordcloud xfun xtable yaml

An overview of AnthropMMD

Graphical user interface | Using {AnthropMMD} from the command line | Data formatting | Raw binary data | Tables of sample sizes and absolute frequencies | Important remark | Trait selection | Compute the mean measure of divergence | Graphical representations of MMD | Multidimensional scaling | Hierarchical clustering | Alternative: analysis using bootstrapped samples | References

Rendered fromintro_AnthropMMD.Rmdusingknitr::rmarkdown

Last update: 2025-10-20
Started: 2019-07-04

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
An R package for the Mean Measure of Divergence (MMD)	AnthropMMD-package AnthropMMD
A toy example dataset for mean measures of divergence, in a table format	absolute_freqs
Converts a data frame of binary (i.e., presence/absence) trait information into a table of sample sizes and frequencies.	binary_to_table
Compute MMD values from a table of sample sizes and relative frequencies	mmd
Implementation of Fidalgo et al.'s (2022) method of bootstrap for the Mean Measure of Divergence	mmd_boot
Display a multidimensional scaling (MDS) plot using Fidalgo et al's (2022) bootstrap method for MMD	plot.anthropmmd_boot
Display a multidimensional scaling (MDS) plot with the MMD dissimilarities as input	plot.anthropmmd_result
Select a subset of traits meeting certain criteria	select_traits
An R-Shiny application for the mean measure of divergence	StartMMD start_mmd
Converts a table of sample sizes and frequencies into a table of sample sizes and relative frequencies.	table_relfreq
A toy example dataset for mean measures of divergence, in a binary format	toyMMD