Package: EDMAinR 0.3-0

EDMAinR: Euclidean Distance Matrix Analysis in R

A coordinate-free approach for comparing biological shapes using landmark data based on Lele and Richtsmeier (1991) <doi:10.1002/ajpa.1330860307>.

Authors:Peter Solymos [aut, cre], Subhash R. Lele [aut], Theodore M. Cole [aut], Liangyuan Hu [aut], Joan T. Richtsmeier [aut], Kevin M. Middleton [ctb]

EDMAinR_0.3-0.tar.gz
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EDMAinR.pdf |EDMAinR.html✨
EDMAinR/json (API)
NEWS

# Install 'EDMAinR' in R:
install.packages('EDMAinR', repos = c('https://psolymos.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/psolymos/edmainr/issues

On CRAN:

comparing-biological-shapescoordinate-freelandmark-datamorphometricsmultivariate-statistics

3.78 score 3 stars 9 scripts 43 exports 52 dependencies

Last updated 1 years agofrom:4815a57911. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 03 2024
R-4.5-winNOTEDec 03 2024
R-4.5-linuxNOTEDec 03 2024
R-4.4-winNOTEDec 03 2024
R-4.4-macNOTEDec 03 2024
R-4.3-winOKDec 03 2024
R-4.3-macOKDec 03 2024

Exports:.edma_fit_np.gpa_fit.Ttest_dataas.edma_datacombine_datacombine_data4dimensionsdimensions<-edma_colorsedma_fdmedma_fdm_reportedma_fitedma_gdmedma_gdm_reportedma_gmedma_scaleedma_sdmedma_simulate_dataget_fdmget_fmget_gdmget_gmget_influenceget_sdmglobal_testgpa_fitlandmarkslandmarks<-Meanformplot_2dplot_3dplot_ciplot_clustplot_edma_colorsplot_ordplot_testplot_Ztestread_xyzSigmaKstarspecimensspecimens<-write_xyzZ_test

Dependencies:apebase64encbslibcachemcellrangerclicpp11crayondigestevaluatefansifastmapfontawesomefsgluehighrhmshtmltoolshtmlwidgetsjquerylibjsonliteknitrlatticelifecyclemagrittrMASSmemoisemimeminpack.lmnlmepbapplypillarpkgconfigprettyunitsprogressR6rappdirsRcppreadxlrematchrglrlangrmarkdownsassscatterplot3dshapestibbletinytexutf8vctrsxfunyaml

EDMA data

Peter Solymos

Rendered fromedma01-data.Rmdusingknitr::rmarkdownon Dec 03 2024.

Last update: 2023-08-21
Started: 2019-12-27

EDMA form difference matrix

Peter Solymos

Rendered fromedma03-form-difference.Rmdusingknitr::rmarkdownon Dec 03 2024.

Last update: 2021-11-05
Started: 2020-11-15

EDMA form matrix

Peter Solymos

Rendered fromedma02-form.Rmdusingknitr::rmarkdownon Dec 03 2024.

Last update: 2020-07-05
Started: 2019-12-27

EDMA growth matrix

Peter Solymos

Rendered fromedma04-growth.Rmdusingknitr::rmarkdownon Dec 03 2024.

Last update: 2021-11-05
Started: 2020-11-15

Readme and manuals

Help Manual

Help pageTopics
Euclidean Distance Matrix Analysis in REDMAinR-package EDMAinR
Check and manipulate colorsedma_colors plot_edma_colors
Functions for EDMA data objectsas.array.edma_data as.data.frame.edma_data as.dist.edma_data as.edma_data as.edma_data.array as.matrix.edma_data combine_data combine_data4 dim.edma_data dimensions dimensions.edma_data dimensions<- dimnames.edma_data edma_simulate_data landmarks landmarks.edma_data landmarks<- plot.edma_data plot_2d plot_2d.edma_data plot_clust plot_clust.edma_data plot_ord plot_ord.edma_data print.edma_data read_xyz specimens specimens.edma_data specimens<- stack.edma_data subset.edma_data write_xyz [.edma_data
Form differenceconfint.edma_dm dimensions.edma_fdm edma_fdm get_fdm get_fdm.edma_fdm get_influence get_influence.edma_dm global_test global_test.edma_fdm landmarks.edma_fdm plot.edma_dm plot.edma_influence plot_2d.edma_dm plot_3d.edma_dm plot_ci plot_ci.edma_fdm plot_clust.edma_fdm plot_ord.edma_fdm plot_test plot_test.edma_dm print.edma_fdm
Nonparametric EDMA fitas.dist.edma_fit as.edma_data.edma_fit confint.edma_fit edma_fit get_fm get_fm.edma_fit Meanform Meanform.edma_fit plot.edma_fit plot_2d.edma_fit plot_3d plot_3d.edma_fit plot_clust.edma_fit plot_ord.edma_fit print.edma_fit_np SigmaKstar SigmaKstar.edma_fit stack.dist
Growth differencedimensions.edma_gdm edma_gdm edma_gm get_gdm get_gdm.edma_gdm get_gm get_gm.edma_gm global_test.edma_gdm global_test.edma_gm landmarks.edma_gdm plot_ci.edma_gdm plot_ci.edma_gm plot_clust.edma_gdm plot_ord.edma_gdm print.edma_gdm print.edma_gm
Scale an EDMA data objectedma_scale
Shape differenceconfint.edma_sdm dimensions.edma_sdm edma_sdm get_influence.edma_sdm get_sdm get_sdm.edma_sdm landmarks.edma_sdm plot_ci.edma_sdm plot_Ztest plot_Ztest.edma_sdm print.edma_sdm Z_test Z_test.edma_sdm
GPAgpa_fit print.gpa_fit
EDMA Reportedma_fdm_report edma_gdm_report