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158 microsatt co TC blo lisup cg link corli a data frame with the coordinates of columns a data frame with the factors associated to the columns (indicators of table) a vector indicating the number of variables for each table a data frame with the projections of normalized scores of rows for each table a data frame with the gravity center for the lisup a data frame containing the projected inertia and the links between the arrays and the reference array a data frame giving the correlations between the $lisup and the $li Author(s) Daniel Chessel Anne B Dufour 〈dufour@biomserv.univ-lyon1.fr〉 References Escofier, B. and Pagès, J. (1994) Multiple factor analysis (AFMULT package), Computational Statistics and Data Analysis, 18, 121–140. Examples data(friday87) w1
microsatt 159 Format microsatt is a list of 4 components. tab contains the allelic frequencies for 18 cattle breeds (Taurine or Zebu,French or African) and 9 microsatellites. loci.names is a vector of the names of loci. loci.eff is a vector of the number of alleles per locus. alleles.names is a vector of the names of alleles. <strong>Source</strong> Extract of data prepared by D. Laloë 〈ugendla@dga2.jouy.inra.fr〉 from data used in: Moazami-Goudarzi, K., D. Laloë, J. P. Furet, and F. Grosclaude (1997) Analysis of genetic relationships between 10 cattle breeds with 17 microsatellites. Animal Genetics, 28, 338–345. Souvenir Zafindrajaona, P.,Zeuh V. ,Moazami-Goudarzi K., Laloë D., Bourzat D., Idriss A., and Grosclaude F. (1999) Etude du statut phylogénétique du bovin Kouri du lac Tchad à l’aide de marqueurs moléculaires. Revue d’Elevage et de Médecine Vétérinaire des pays Tropicaux, 55, 155–162. Moazami-Goudarzi, K., Belemsaga D. M. A., Ceriotti G., Laloë D. , Fagbohoun F., Kouagou N. T., Sidibé I., Codjia V., Crimella M. C., Grosclaude F. and Touré S. M. (2001) Caractérisation de la race bovine Somba à l’aide de marqueurs moléculaires. Revue d’Elevage et de Médecine Vétérinaire des pays Tropicaux, 54, 1–10. References See a data description at http://pbil.univ-lyon1.fr/R/pps/pps055.pdf (in French). Examples ## Not run: data(microsatt) fac
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The ade4 Package February 16, 2008
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R topics documented: 3 dudi.acm . .
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R topics documented: 5 plot.phylog
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EH 7 EH Amount of Evolutionary Hist
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RV.rtest 9 RV.rtest Monte-Carlo Tes
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acacia 11 Format abouheif.eg is a l
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add.scatter 13 Usage add.scatter(fu
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ade4toR 15 Arguments fictab ficcoln
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amova 17 amova Analysis of molecula
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ardeche 19 ardeche Fauna Table with
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area.plot 21 Value possub cpoint la
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arrival 23 # 4 fr.poly
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atlas 25 par(mfrow = c(1,1)) all(di
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avijons 27 Examples ## Not run: dat
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avimedi 29 par(mfcol=c(3,2)) s.valu
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acteria 31 Details aviurba$mil cont
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aran95 33 eparlog : "Savings and lo
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etween 35 par(mfrow = c(1,1)) betwe
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icenter.wt 37 Format Source A list
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setal97 39 Format bsetal97 is a lis
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utterfly 41 Examples data(buech) pa
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capitales 43 is.euclid(d1) # TRUE p
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carniherbi49 45 Format Source carni
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cca 47 Usage data(casitas) Format T
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chatcat 49 s.match(iv1$ls, iv1$li,
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chazeb 51 chazeb Charolais-Zebus De
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cnc2003 53 Usage data(clementines)
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coinertia 55 coinertia Coinertia An
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coleo 57 coleo Table of Fuzzy Biolo
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corvus 59 Examples data(friday87) f
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disc 61 disc Rao’s dissimilarity
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discrimin.coa 63 See Also lda in pa
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dist.dudi 65 5 = Czekanowski (1913)
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dist.genet 67 Let P the table of ge
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dist.prop 69 Value returns a distan
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dist.quant 71 Arguments df method d
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divcmax 73 divcmax Maximal value of
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dotchart.phylog 75 Usage dotchart.p
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doubs 77 doubs Pair of Ecological T
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dpcoa 79 Value option csize the fun
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dudi.acm 81 Value as.dudi and all t
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dudi.coa 83 Examples data(ours) sum
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dudi.fca 85 Arguments df eff scannf
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dudi.hillsmith 87 data(bsetal97) w
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dudi.mix 89 Details If df contains
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dudi.pca 91 dudi.pca Principal Comp
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dudi.pco 93 Usage dudi.pco(d, row.w
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ecg 95 ecg Electrocardiogram data D
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elec88 97 References See a data des
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escopage 99 escopage K-tables of wi
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foucart 101 References Cheverud, J.
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friday87 103 friday87 Faunistic K-t
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fuzzygenet 105 fuzzygenet Reading a
Page 107 and 108: genet 107 Value Returns an object o
Page 109 and 110: genet 109 Value char2genet returns
Page 111 and 112: granulo 111 Examples if(require(pix
Page 113 and 114: hdpg 113 Examples w
Page 115 and 116: humDNAm 115 Usage data(housetasks)
Page 117 and 118: inertia.dudi 117 inertia.dudi Stati
Page 119 and 120: is.euclid 119 contour is a data fra
Page 121 and 122: julliot 121 Format julliot is a lis
Page 123 and 124: kcponds 123 Examples data(jv73) s.l
Page 125 and 126: kdist 125 Details The attributs of
Page 127 and 128: kdisteuclid 127 Value returns a lis
Page 129 and 130: kplot 129 kplot Generic Function fo
Page 131 and 132: kplot.mfa 131 csub possub a charact
Page 133 and 134: kplot.sepan 133 which.graph an opti
Page 135 and 136: kplot.statis 135 w
Page 137 and 138: ktab 137 Value plot.krandtest draws
Page 139 and 140: ktab.data.frame 139 Examples data(f
Page 141 and 142: ktab.list.dudi 141 Examples data(jv
Page 143 and 144: ktab.within 143 Examples data(meau)
Page 145 and 146: lingoes 145 Examples data(lascaux)
Page 147 and 148: macaca 147 References Bauwens, D.,
Page 149 and 150: mantel.randtest 149 Source Belair,
Page 151 and 152: maples 151 Arguments m1 m2 nrepet a
Page 153 and 154: mcoa 153 Source Codes for rows and
Page 155 and 156: meau 155 Examples data(friday87) w1
Page 157: mfa 157 mfa Multiple Factorial Anal
Page 161 and 162: mld 161 Examples data(mjrochet) mjr
Page 163 and 164: monde84 163 Format Source mollusc i
Page 165 and 166: mstree 165 mstree Minimal Spanning
Page 167 and 168: multispati 167 Value Returns an obj
Page 169 and 170: multispati.randtest 169 w1.msm
Page 171 and 172: neig 171 Author(s) Daniel Chessel S
Page 173 and 174: neig 173 #hist(dist, nclass = 50) m
Page 175 and 176: newick2phylog 175 References Bauwen
Page 177 and 178: niche 177 w[19]
Page 179 and 180: njplot 179 Author(s) Daniel Chessel
Page 181 and 182: optimEH 181 Source Example 357 in:
Page 183 and 184: originality 183 Details Variables o
Page 185 and 186: orisaved 185 orisaved Maximal or mi
Page 187 and 188: orthobasis 187 Value All the functi
Page 189 and 190: orthogram 189 orthogram Orthonormal
Page 191 and 192: ours 191 Examples # a phylogenetic
Page 193 and 194: palm 193 palm Phylogenetic and quan
Page 195 and 196: pcaiv 195 pcaiv Principal component
Page 197 and 198: pcaivortho 197 Arguments dudi df sc
Page 199 and 200: perthi02 199 Author(s) Daniel Chess
Page 201 and 202: phylog 201 paths droot call Wmat Wd
Page 203 and 204: plot.phylog 203 f.phylog circle cle
Page 205 and 206: presid2002 205 ## Not run: # plot a
Page 207 and 208: procuste 207 Format procella is a l
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procuste.randtest 209 References Di
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pta 211 Arguments df1 df2 nrepet a
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quasieuclid 213 Author(s) Pierre Ba
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andtest-internal 215 References Nee
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andtest.amova 217 Examples par(mfro
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andtest.coinertia 219 randtest.coin
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ankrock 221 # Df Pillai approx F nu
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hone 223 rhone Physico-Chemistry Da
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lq 225 nf RV eig lw cw tab li l1 co
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test 227 Examples ## Not run: data(
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test.discrimin 229 References Romes
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s.chull 231 addaxes cgrid sub csub
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s.class 233 Examples xy 0) coul 0
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s.corcircle 235 possub = "bottomrig
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s.distri 237 Value clabel cpoint pc
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s.image 239 Examples data(rpjdl) co
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s.kde2d 241 s.image(t3012$xy, scale
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s.label 243 Arguments Value dfxy xa
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s.logo 245 Value xax yax neig cneig
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s.multinom 247 Value cgrid a charac
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s.traject 249 Value Returns in a hi
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s.value 251 Examples rw
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santacatalina 253 par(mfrow = c(3,4
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scalewt 255 scalewt Centring and Sc
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scatter 257 Author(s) See Also Dani
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scatter.dudi 259 Arguments x xax ya
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scatter.fca 261 scatter.fca Plot of
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sco.distri 263 banque.acm
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score 265 Arguments score df fac cl
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score.coa 267 Arguments x xax which
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score.mix 269 par(mfrow = c(1,1)) s
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seconde 271 seconde Students and Su
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skulls 273 skulls Morphometric Evol
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steppe 275 C.T4 TL TC T4 a data fra
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suprow 277 Details If supcol.defaul
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symbols.phylog 279 symbols.phylog R
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table.cont 281 Format Source t3012
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table.paint 283 Usage table.dist(d,
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table.value 285 labels.col clabel.c
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tarentaise 287 Format tarentaise is
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testdim 289 testdim Function to per
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tithonia 291 s.label(tintoodiel$xy,
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toxicity 293 points(ref,xyz[,2], pc
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triangle.plot 295 show.position a l
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trichometeo 297 Examples data (euro
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uniquewt.df 299 Source Data were ob
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vegtf 301 Value Returns a list cont
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westafrica 303 Details The columns
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within 305 afri.ms
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withinpca 307 withinpca Normed with
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worksurv 309 References Cazes, P.,
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zealand 311 Examples data(yanomama)
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Index ∗Topic array cailliez, 36 d
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INDEX 315 krandtest, 130 randtest,
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INDEX 317 bf88, 30 bicenter.wt, 31
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INDEX 319 plot.procuste (procuste),
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INDEX 321 wavelet.filter, 181 westa
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