The ade4 Package - NexTag Supports Open Source Initiatives

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316 INDEX scatter.coa, 252 scatter.dudi, 253 scatter.fca, 255 sco.boxplot, 256 sco.distri, 257 sco.quant, 258 score, 259 score.acm, 260 score.coa, 261 score.mix, 263 score.pca, 264 sepan, 265 statis, 268 supcol, 270 suprow, 271 testdim, 283 within, 299 withinpca, 301 witwit.coa, 302 ∗Topic nonparametric corkdist, 52 mantel.randtest, 143 mantel.rtest, 144 multispati.randtest, 163 multispati.rtest, 164 procuste.randtest, 203 procuste.rtest, 204 randtest.amova, 211 randtest.between, 212 randtest.coinertia, 213 randtest.discrimin, 214 rtest.between, 222 rtest.discrimin, 223 RV.rtest, 3 RVdist.randtest, 4 ∗Topic spatial gearymoran, 100 gridrowcol, 106 mld, 155 multispati, 160 multispati.randtest, 163 multispati.rtest, 164 orthobasis, 180 orthogram, 183 rlq, 218 ∗Topic ts gearymoran, 100 mld, 155 orthobasis, 180 orthogram, 183 ∗Topic utilities <strong>ade4</strong>toR, 9 bicenter.wt, 31 kdisteuclid, 121 mstree, 159 neig, 165 scalewt, 249 uniquewt.df, 293 [.kdist (kdist), 118 [.ktab (ktab), 131 abouheif.eg, 5 acacia, 6 acm.burt (dudi.acm), 75 acm.disjonctif (dudi.acm), 75 add.position.triangle (triangle.plot), 289 add.scatter, 7, 251 <strong>ade4</strong>toR, 9 aminoacyl, 10 amova, 11 apis108, 12 ardeche, 13 area.plot, 14, 166 area.util.class (area.plot), 14 area.util.contour (area.plot), 14 area.util.xy (area.plot), 14 area2link (area.plot), 14 area2poly (area.plot), 14 arrival, 17 as.data.frame.kdist (kdist), 118 as.dudi, 302 as.dudi (dudi), 74 as.krandtest (krandtest), 130 as.randtest (randtest), 210 as.rtest (rtest), 221 as.taxo, 18, 170 atlas, 19 atya, 20 avijons, 21 avimedi, 23 aviurba, 24 bacteria, 25 banque, 26 baran95, 27 between, 29
INDEX 317 bf88, 30 bicenter.wt, 31 bordeaux, 32 boxplot.acm (dudi.acm), 75 bsetal97, 32 buech, 34 butterfly, 35 c.kdist (kdist), 118 c.ktab (ktab), 131 cailliez, 36 capitales, 37 carni19, 38 carni70, 38 carniherbi49, 39 casitas, 40 cca, 41, 42 char2genet, 100 char2genet (genet), 101 chatcat, 43 chats, 44 chazeb, 45 chevaine, 45 circ.plot, 70 clementines, 46 cnc2003, 47 coinertia, 49, 219 col.names (ktab), 131 col.names
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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
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genet 107 Value Returns an object o
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genet 109 Value char2genet returns
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granulo 111 Examples if(require(pix
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hdpg 113 Examples w
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humDNAm 115 Usage data(housetasks)
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inertia.dudi 117 inertia.dudi Stati
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is.euclid 119 contour is a data fra
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julliot 121 Format julliot is a lis
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kcponds 123 Examples data(jv73) s.l
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kdist 125 Details The attributs of
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kdisteuclid 127 Value returns a lis
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kplot 129 kplot Generic Function fo
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kplot.mfa 131 csub possub a charact
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kplot.sepan 133 which.graph an opti
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kplot.statis 135 w
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ktab 137 Value plot.krandtest draws
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ktab.data.frame 139 Examples data(f
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ktab.list.dudi 141 Examples data(jv
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ktab.within 143 Examples data(meau)
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lingoes 145 Examples data(lascaux)
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macaca 147 References Bauwens, D.,
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mantel.randtest 149 Source Belair,
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maples 151 Arguments m1 m2 nrepet a
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mcoa 153 Source Codes for rows and
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meau 155 Examples data(friday87) w1
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mfa 157 mfa Multiple Factorial Anal
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microsatt 159 Format microsatt is a
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mld 161 Examples data(mjrochet) mjr
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monde84 163 Format Source mollusc i
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mstree 165 mstree Minimal Spanning
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multispati 167 Value Returns an obj
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multispati.randtest 169 w1.msm
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neig 171 Author(s) Daniel Chessel S
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neig 173 #hist(dist, nclass = 50) m
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newick2phylog 175 References Bauwen
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niche 177 w[19]
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njplot 179 Author(s) Daniel Chessel
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optimEH 181 Source Example 357 in:
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originality 183 Details Variables o
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orisaved 185 orisaved Maximal or mi
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orthobasis 187 Value All the functi
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orthogram 189 orthogram Orthonormal
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ours 191 Examples # a phylogenetic
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palm 193 palm Phylogenetic and quan
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pcaiv 195 pcaiv Principal component
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pcaivortho 197 Arguments dudi df sc
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perthi02 199 Author(s) Daniel Chess
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phylog 201 paths droot call Wmat Wd
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plot.phylog 203 f.phylog circle cle
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presid2002 205 ## Not run: # plot a
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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
Page 265 and 266: score 265 Arguments score df fac cl
Page 267 and 268: score.coa 267 Arguments x xax which
Page 269 and 270: score.mix 269 par(mfrow = c(1,1)) s
Page 271 and 272: seconde 271 seconde Students and Su
Page 273 and 274: skulls 273 skulls Morphometric Evol
Page 275 and 276: steppe 275 C.T4 TL TC T4 a data fra
Page 277 and 278: suprow 277 Details If supcol.defaul
Page 279 and 280: symbols.phylog 279 symbols.phylog R
Page 281 and 282: table.cont 281 Format Source t3012
Page 283 and 284: table.paint 283 Usage table.dist(d,
Page 285 and 286: table.value 285 labels.col clabel.c
Page 287 and 288: tarentaise 287 Format tarentaise is
Page 289 and 290: testdim 289 testdim Function to per
Page 291 and 292: tithonia 291 s.label(tintoodiel$xy,
Page 293 and 294: toxicity 293 points(ref,xyz[,2], pc
Page 295 and 296: triangle.plot 295 show.position a l
Page 297 and 298: trichometeo 297 Examples data (euro
Page 299 and 300: uniquewt.df 299 Source Data were ob
Page 301 and 302: vegtf 301 Value Returns a list cont
Page 303 and 304: westafrica 303 Details The columns
Page 305 and 306: within 305 afri.ms
Page 307 and 308: withinpca 307 withinpca Normed with
Page 309 and 310: worksurv 309 References Cazes, P.,
Page 311 and 312: zealand 311 Examples data(yanomama)
Page 313 and 314: Index ∗Topic array cailliez, 36 d
Page 315: INDEX 315 krandtest, 130 randtest,
Page 319 and 320: INDEX 319 plot.procuste (procuste),
Page 321: INDEX 321 wavelet.filter, 181 westa
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