Package: Arothron 2.0.5

Arothron: Geometric Morphometric Methods and Virtual Anthropology Tools

Tools for geometric morphometric analysis. The package includes tools of virtual anthropology to align two not articulated parts belonging to the same specimen, to build virtual cavities as endocast (Profico et al, 2021 <doi:10.1002/ajpa.24340>).

Authors:Antonio Profico, Costantino Buzi, Silvia Castiglione, Marina Melchionna, Paolo Piras, Pasquale Raia, Alessio Veneziano

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Arothron.pdf |Arothron.html✨
Arothron/json (API)

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

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

2.59 score 2 packages 13 scripts 494 downloads 1 mentions 34 exports 74 dependencies

Last updated 2 years agofrom:79c614f1b1. Checks:9 OK. Indexed: yes.

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Exports:aro.clo.pointsarraytolistbary.meshcompare_check.setCScorreffectdec.curvedtaendomakerendomaker_direxport_amiraexport_amira.pathext.int.meshext.mesh.raigrid_povimage2paletteslandmark_frm2amiralisttoarraylocalmeshdiffMLECScorrectionnoise.meshout.inn.meshpatches_frm2amiraPCscoresCorrpermutanglepov_selecterread.amira.dirread.amira.setread.path.amirarepmatspherical.flippingtrasf.meshtwodvarshapetwodviewsvolendo

Dependencies:abindalphashape3dbase64encbayesmbezierbslibcachemclassclassIntcliclustercodetoolscolorRampscompositionsDBIDEoptimRdigestdoParallele1071evaluatefastmapfontawesomeforeachfsgeometrygluehighrhtmltoolshtmlwidgetsiteratorsjquerylibjsonliteKernSmoothknitrlatticelifecyclelinproglpSolvemagicmagrittrMASSMatrixmemoisemgcvmimeMorphonlmepermuteproxyR6RANNrappdirsRcppRcppArmadilloRcppEigenRcppProgressrglrlangrmarkdownrobustbaseRvcgs2sasssfstringistringrtensorAtinytexunitsvctrsveganwkxfunyaml

Readme and manuals

Help Manual

Help pageTopics
eometric Morphometric Methods and Virtual Anthropology ToolsArothron-package Arothron
example datasetAltapic
aro.clo.pointsaro.clo.points
arraytolistarraytolist
bary.meshbary.mesh
compare_check.setcompare_check.set
CScorreffect Plot showing the correlation in the shape space between original and combined dataset omitting or including the normalization factors calculated with Arothron and MLECScorrectionCScorreffect
dec.curvedec.curve
example datasetDM_base_sur
example datasetDM_face_sur
example datasetDM_set
dtadta
example datasetendo_set
endomakerendomaker
endomaker_direndomaker_dir
export_amiraexport_amira
export_amira.pathexport_amira.path
ext.int.meshext.int.mesh
ext.mesh.raiext.mesh.rai
example datasetfemsets
grid_povgrid_pov
example datasethuman_skull
image2palettesimage2palettes
example datasetkrd1_tooth
landmark_frm2amiralandmark_frm2amira
listtoarray convert a list into an arraylisttoarray
localmeshdiff Calculate and Visualize local differences between two mesheslocalmeshdiff
example datasetLset2D_list
example datasetLset3D_array
example datasetmalleus_bone
example datasetMAs_sets
MLECScorrection Maximum Likelihood Estimation of the normalization factor to be applied to optimize the correlation between two landmark configurations to be combined by using twodviews andMLECScorrection
noise.meshnoise.mesh
out.inn.meshout.inn.mesh
patches_frm2amirapatches_frm2amira
PCscoresCorr Perform a correlation test between two matrices of PCscoresPCscoresCorr
permutanglepermutangle
pov_selecterpov_selecter
example datasetprimendoR
read.amira.dirread.amira.dir
read.amira.setread.amira.set
read.path.amiraread.path.amira
repmatrepmat
example datasetRMs_sets
example datasetSCP1.mesh
example datasetsinus_set
example datasetSM_set
spherical.flippingspherical.flipping
trasf.meshtrasf.mesh
twodvarshape Calculates the shape variation associated to a value of PC scores associated to a specific combined landmark configuration or viewtwodvarshape
twodviews Combine and calculate the PCscores matrix from a list of different landmark configurations to be combinedtwodviews
volendovolendo
example datasetyoda_set
example datasetyoda_sur