Package: shapes 1.2.8

shapes: Statistical Shape Analysis

Routines for the statistical analysis of landmark shapes, including Procrustes analysis, graphical displays, principal components analysis, permutation and bootstrap tests, thin-plate spline transformation grids and comparing covariance matrices. See Dryden, I.L. and Mardia, K.V. (2016). Statistical shape analysis, with Applications in R (2nd Edition), John Wiley and Sons.

Authors:Ian L. Dryden

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NEWS

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

Peer review:

Bug tracker:https://github.com/iandryden/shapes/issues

Datasets:

On CRAN:

297 exports 7 stars 7.90 score 32 dependencies 23 dependents 26 mentions 197 scripts 1.7k downloads

Last updated 7 months agofrom:f5f965b013. Checks:OK: 1 WARNING: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 29 2024
R-4.5-winWARNINGSep 29 2024
R-4.5-linuxWARNINGSep 29 2024
R-4.4-winWARNINGSep 29 2024
R-4.4-macWARNINGSep 29 2024
R-4.3-winWARNINGSep 29 2024
R-4.3-macWARNINGSep 29 2024

Exports:abindaddas.3dbackfitbanner1banner4bendingenergybgpabookstein.shpvbookstein.shpv.complexbookstein2dbootstraptestBoxMbraincon.datbrainscz.datcbeveccbevectorscentroid.sizecentroid.size.complexcentroid.size.mDclose1cnt3col2RGBcomplextorealdefhdefplotsize2defplotsize3deldifdif.olddigit3.datdisdistCholeskydistcovdistEuclideandistLogEuclideandistPowerEuclideandistProcrustesFulldistProcrustesSizeShapedistRiemannianLedistRiemPennecdna.datEnormEnormalizeestCholeskyestcovestEuclidestLogEuclidestLogRiem2estPowerEuclidestRiemLeestShapeestSSExpNPdfastpnsfcelfcntfgpafgpa.rotfgpa.singleiterationfJflipud0fopafortfort.ROTATEANDREFLECTfort.ROTATIONfosfos.REFLECTfrechetftrsqfull.procdistgenpowergeodmeanS1get.data.subsphereget.prinarcget.prinarc.subsphereget.prinarc.valuegetSubSphereGoodallgoodall2dGoodall2DgoodalltestGoodalltestgorf.datgorm.datgrafgroupstackHessian2Hotellinghotelling2dHotelling2DHotelling2DjameshotellingtestHotellingtestI2matigloglild_centroid.sizeild_centroid.size.complexild_centroid.size.mDild_defhild_distCholeskyild_distProcrustesFullild_distProcrustesSizeShapeild_Enormild_estShapeild_estSSild_kendall.shpvild_preshapeild_preshape.matild_preshape.mDild_preshapetoiconild_tanfigureild_tanfigurefullisodensisologdensisomleisotropy.testJameskendall.shpvLambdaminlinegridloglikeisologlikeiso2LogNPdloneFoneLRTpvalmacf.datmacm.datmahpreshapedistmakearrayMDSshapeMGMmodmoviemshmultiply_by_helmertmultiply_by_helmert_explicitlymultiply_by_helmert_implicitlymultiply_by_helmert_implicitly_3dmultiply_by_transpose_of_helmertmultiply_by_transpose_of_helmert_explicitlymultiply_by_transpose_of_helmert_implicitlyobjfnobjfunobjfun4objfunisooneFonepanf.datpanm.datpartial.procdistpartialwarpgridspartialwarpspc2spherepc2sphere2pcscore2spherepcscore2sphere2pcscore2sphere3pedpedregpermutationtestpermutationtest2plot2rwscoresPlot3Dplot3darcsplot3Ddataplot3Ddata.staticplot3Dmeanplot3Dpcaplotpairscoresplotpcaplotpca3dplotPDMplotPDM2plotPDM3plotPDMbookplotPDMnoaxisplotPDMnoaxis3plotprinwarpplotprocplotrelwarpplotshapesplotshapes3dplotshapes3d.pnsplotshapestime3dpnspns.pcpns4pcPNSe2sPNSs2epnss3dpointsPDMnoaxis3pongof.datpongom.datprcomp1preshapepreshape.matpreshape.mDpreshape2shapepreshapetoiconprinwscoregridsprocdistprocdistreflectprocGPAprocOPAProcrustes.dist.fullprocrustes2dprocrustesgpaprocrustesGPAprocrustesGPA.rotprocWGPAprocWGPA1projectproject.subsphereprojectPNSqcet2.datqlet2.datqset2.datrandvonMisesFishermread.arrayread.inrealtocomplexreassqprrelwarpsrepmatresampletestrgl.sphgrid1rgpariemdistriemdist.complexriemdist.mDrigidbodyrootmatrot.matrotateaxesrotatexyzrotMatschizo.datschizophrenia.datselectsgpashshape.pcscoresshape.pcscores.partialshapepcashaperwshapes.cvashapes3dsigmacovsim1sooty.datsph2car1sphere.jacsphere.objsphere.ressphere1.fsphere2pcscoresphereFitssriemdiststtanfiguretanfigurefulltangent.coords.partialtangentcoords.partial.invtanpreshapetestmeanshapestestmeanshapes.oldtestshapestpsgridTPSgridtpsgrid.oldtrtrans.subspheretransformationsuji_centroid.sizeuji_centroid.size.complexuji_centroid.size.mDuji_defhuji_distCholeskyuji_distProcrustesFulluji_distProcrustesSizeShapeuji_Enormuji_estShapeuji_estSSuji_kendall.shpvuji_preshapeuji_preshape.matuji_preshape.mDuji_tanfigureuji_tanfigurefulluji2_centroid.sizeuji3_centroid.sizeUNIFORMdirectionsVvec1VinvVmatvMFtest

Dependencies:base64encbslibcachemclidigestevaluatefastmapfontawesomefsgluehighrhtmltoolshtmlwidgetsjquerylibjsonliteknitrlifecyclemagrittrMASSmemoisemimeminpack.lmR6rappdirsrglrlangrmarkdownsassscatterplot3dtinytexxfunyaml

Readme and manuals

Help Manual

Help pageTopics
Great ape dataapes
Backfit from scores to configurationbackfit
Bookstein's baseline registration for 2D databookstein2d
Brain landmark databrains
Centroid sizecentroid.size
Cortical surface datacortical
Digit 3 datadigit3.dat
Compute a distance between two covariance matricesdistcov
DNA datadna.dat
Weighted Frechet mean of covariance matricesestcov
Fast Principal Nested Spheresfastpns
Mean shape estimatorsfrechet
Electrophoresis gel datagels
Female gorilla datagorf.dat
Male gorilla datagorm.dat
Combine two or more groups of configurationsgroupstack
Human movement datahumanmove
Male and Female macaque datamacaques
Female macaque datamacf.dat
Male macaque datamacm.dat
T2 mouse vertabrae datamice
Female chimpanzee datapanf.dat
Male chimpanzee datapanm.dat
Modes of variation plots for PCA and PNSSplot3darcs
Plot configurationsplotshapes
Principal Nested Spherespns
Principal Nested Shape Spaces from PCApns4pc
Principal Nested Shape Space Analysispnss3d
Female orang utan datapongof.dat
Male orang utan datapongom.dat
Procrustes distanceprocdist
Generalised Procrustes analysisprocGPA
Ordinary Procrustes analysisprocOPA
Weighted Procrustes analysisprocWGPA
Control T2 mouse vertabrae dataqcet2.dat
Large T2 mouse vertabrae dataqlet2.dat
Small T2 mouse vertabrae dataqset2.dat
Rat skulls datarats
Tests for mean shape difference using complex arithmetic, including bootstrap and permutation tests.resampletest
Riemannian shape distanceriemdist
Rigid body transformationsrigidbody
Sand particle outline datasand
Bookstein's schizophrenia dataschizophrenia
Bookstein's schizophrenia dataschizophrenia.dat
Principal components analysis for shapeshapepca
Canonical variate analysis for shapesshapes.cva
Plot 3D datashapes3d
Microfossil shell datashells
Sooty mangabey datasooty
Riemannian size-and-shape distancessriemdist
Steroid datasteroids
Tests for mean shape difference, including permutation and bootstrap teststestmeanshapes
Thin-plate spline transformation gridstpsgrid
Calculate similarity transformationstransformations