The ade4 Package - NexTag Supports Open Source Initiatives

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150 mantel.rtest Description Performs a Mantel test between two distance matrices. Usage mantel.randtest(m1, m2, nrepet = 999) Arguments m1 m2 nrepet an object of class dist an object of class dist the number of permutations Value an object of class randtest (randomization tests) Author(s) Jean Thioulouse 〈ade4-jt@biomserv.univ-lyon1.fr〉 References Mantel, N. (1967) The detection of disease clustering and a generalized regression approach. Cancer Research, 27, 209–220. Examples data(yanomama) gen
maples 151 Arguments m1 m2 nrepet an object of class dist an object of class dist the number of permutations Value an object of class rtest (randomization tests) Author(s) Daniel Chessel Stéphane Dray 〈dray@biomserv.univ-lyon1.fr〉 References Mantel, N. (1967) The detection of disease clustering and a generalized regression approach. Cancer Research, 27, 209–220. Examples data(yanomama) gen
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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
Page 99 and 100: escopage 99 escopage K-tables of wi
Page 101 and 102: foucart 101 References Cheverud, J.
Page 103 and 104: friday87 103 friday87 Faunistic K-t
Page 105 and 106: 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: mantel.randtest 149 Source Belair,
Page 153 and 154: mcoa 153 Source Codes for rows and
Page 155 and 156: meau 155 Examples data(friday87) w1
Page 157 and 158: mfa 157 mfa Multiple Factorial Anal
Page 159 and 160: microsatt 159 Format microsatt is a
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
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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
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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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