我们怎么样？
我是从业者，使用R中的vegan包来计算SIMPER。
我有一组有关海洋鱼类种类和位置的数据。现在，我想使用我的数据来计算SIMPER。我该怎么办？
我试图找到SIMPER的教程。但还是很困惑
example
需要两组数据。 （dune和dune.env）。
Data(dune)
str(dune)
'data.frame': 20 obs. of 30 variables:
$ Achimill: num 1 3 0 0 2 2 2 0 0 4 ...
$ Agrostol: num 0 0 4 8 0 0 0 4 3 0 ...
$ Airaprae: num 0 0 0 0 0 0 0 0 0 0 ...
$ Alopgeni: num 0 2 7 2 0 0 0 5 3 0 ...
$ Anthodor: num 0 0 0 0 4 3 2 0 0 4 ...
$ Bellpere: num 0 3 2 2 2 0 0 0 0 2 ...
$ Bromhord: num 0 4 0 3 2 0 2 0 0 4 ...
$ Chenalbu: num 0 0 0 0 0 0 0 0 0 0 ...
$ Cirsarve: num 0 0 0 2 0 0 0 0 0 0 ...
$ Comapalu: num 0 0 0 0 0 0 0 0 0 0 ...
$ Eleopalu: num 0 0 0 0 0 0 0 4 0 0 ...
$ Elymrepe: num 4 4 4 4 4 0 0 0 6 0 ...
$ Empenigr: num 0 0 0 0 0 0 0 0 0 0 ...
$ Hyporadi: num 0 0 0 0 0 0 0 0 0 0 ...
$ Juncarti: num 0 0 0 0 0 0 0 4 4 0 ...
$ Juncbufo: num 0 0 0 0 0 0 2 0 4 0 ...
$ Lolipere: num 7 5 6 5 2 6 6 4 2 6 ...
$ Planlanc: num 0 0 0 0 5 5 5 0 0 3 ...
$ Poaprat : num 4 4 5 4 2 3 4 4 4 4 ...
$ Poatriv : num 2 7 6 5 6 4 5 4 5 4 ...
$ Ranuflam: num 0 0 0 0 0 0 0 2 0 0 ...
$ Rumeacet: num 0 0 0 0 5 6 3 0 2 0 ...
$ Sagiproc: num 0 0 0 5 0 0 0 2 2 0 ...
$ Salirepe: num 0 0 0 0 0 0 0 0 0 0 ...
$ Scorautu: num 0 5 2 2 3 3 3 3 2 3 ...
$ Trifprat: num 0 0 0 0 2 5 2 0 0 0 ...
$ Trifrepe: num 0 5 2 1 2 5 2 2 3 6 ...
$ Vicilath: num 0 0 0 0 0 0 0 0 0 1 ...
$ Bracruta: num 0 0 2 2 2 6 2 2 2 2 ...
$ Callcusp: num 0 0 0 0 0 0 0 0 0 0 ...
Data(dune.env)
str(dune.env)
'data.frame': 20 obs. of 5 variables:
$ A1 : num 2.8 3.5 4.3 4.2 6.3 4.3 2.8 4.2 3.7 3.3 ...
$ Moisture : Ord.factor w/ 4 levels "1"<"2"<"4"<"5": 1 1 2 2 1 1 1 4 3 2 ...
$ Management: Factor w/ 4 levels "BF","HF","NM",..: 4 1 4 4 2 2 2 2 2 1 ...
$ Use : Ord.factor w/ 3 levels "Hayfield"<"Haypastu"<..: 2 2 2 2 1 2 3 3 1 1 ...
$ Manure : Ord.factor w/ 5 levels "0"<"1"<"2"<"3"<..: 5 3 5 5 3 3 4 4 2 2 ...
(sim<-with(dune.env,simper(dune,Management)))
summary(sim)
$SF_BF
Agrostol Alopgeni Lolipere Trifrepe Poatriv Scorautu Bromhord
0.09824271 0.18254830 0.25956958 0.33367870 0.40734444 0.47729205 0.53120026
Achimill Planlanc Elymrepe Bracruta
0.57946526 0.62522255 0.67016196 0.71098133
$SF_HF
Agrostol Alopgeni Lolipere Planlanc Rumeacet Elymrepe Poatriv
0.08350879 0.16534834 0.23934930 0.30843624 0.37716139 0.43334492 0.48351753
Bracruta Eleopalu Poaprat Anthodor Sagiproc Trifprat
0.52804045 0.57205850 0.61423981 0.65549838 0.69628951 0.73696831
$SF_NM
Poatriv Alopgeni Agrostol Lolipere Eleopalu Poaprat Bracruta Elymrepe
0.1013601 0.1935731 0.2667383 0.3377578 0.3999419 0.4526707 0.5044725 0.5505643
Scorautu Trifrepe Sagiproc Salirepe
0.5926117 0.6320111 0.6712478 0.7091528
$BF_HF
Rumeacet Poatriv Planlanc Bromhord Lolipere Elymrepe Trifrepe
0.08163219 0.15193797 0.21918333 0.27967181 0.33969561 0.39843338 0.45298204
Anthodor Achimill Bracruta Alopgeni Trifprat Juncarti
0.50276849 0.55222648 0.60021994 0.64584333 0.69126471 0.73366621
$BF_NM
Lolipere Poatriv Poaprat Trifrepe Bromhord Bracruta Eleopalu Agrostol
0.1242718 0.1992126 0.2711756 0.3414609 0.3958520 0.4448077 0.4910724 0.5369083
Achimill Scorautu Anthodor Planlanc
0.5823926 0.6253645 0.6638182 0.7012577
$HF_NM
Poatriv Lolipere Rumeacet Poaprat Planlanc Bracruta Eleopalu
0.09913221 0.17468460 0.23917190 0.29701331 0.35469313 0.40365488 0.44804851
Agrostol Trifrepe Elymrepe Anthodor Juncarti Trifprat Salirepe
0.49226546 0.53434466 0.57564661 0.61543243 0.65341300 0.68921695 0.72432408
Contrast: SF_BF
average sd ratio ava avb cumsum
Agrostol 0.061374 0.034193 1.7949 4.6667 0.0000 0.09824
Alopgeni 0.052667 0.036476 1.4439 4.3333 0.6667 0.18255
Lolipere 0.048116 0.039445 1.2198 3.0000 6.0000 0.25957
Trifrepe 0.046297 0.025525 1.8138 1.3333 4.6667 0.33368
Poatriv 0.046020 0.033801 1.3615 4.6667 3.6667 0.40734
Scorautu 0.043697 0.024922 1.7534 1.3333 4.3333 0.47729
我无法理解这两者之间的联系，也无法弄清楚R如何计算才能应用于my data
'data.frame': 20 obs. of 603 variables:
$ Abalistes.stellaris : num 0 0 0 0 0 0 0 0 0 0 ...
$ Abudefduf.sexfasciatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Acanthocepola.indica : num 0 1.09 0 0 0 ...
$ Acanthocepola.krusensternii : num 80 2.61 1.48 34.19 0 ...
$ Acanthocepola.limbata : num 0 0 0 5.3 0 ...
$ Acanthopagrus.australis : num 0 0 0 0 0 0 0 0 0 0 ...
$ Acentrogobius.caninus : num 0 10.3 16.3 0 0 ...
$ Acentrogobius.nebulosus : num 0 0 0 0 0 ...
$ Acetes.sp. : num 0 0 0 0 0 ...
$ Aesopia.cornuta : num 0 0 0 3.87 0 ...
$ Alectis.ciliaris : num 0.97 0 0 0 0 0 0 1.07 0 0 ...
$ Alectis.indicus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Alepes.djedaba : num 0 0 0 0 2.31 0 0 0 0 0 ...
$ Alepes.kleinii : num 0 0 0 83.5 33.2 ...
$ Alepes.melanoptera : num 11.84 2.61 1.59 2.11 2.31 ...
$ Alepes.vari : num 4.9 0 0 0 0 0 0 0 0 0 ...
$ Allenbatrachus.grunniens : num 1.11 0 1.71 0 0 ...
$ Alpheidae : num 0 0 5 0 0 0 0 0 5 24 ...
$ Alpheus.digitalis : num 0 0 0 0 0 0 4.71 0 0 0 ...
$ Alpheus.sp. : num 0 0 0 0 0 ...
$ Aluterus.monoceros : num 0 0 0 1.94 1.79 0.95 0 0 0 1.94 ...
$ Aluterus.scriptus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Ambassis.vachellii : num 0 0 0 0 4.62 0 0 0 0 0 ...
$ Amblygobius.sp. : num 0 0 0 0 4 0 0 90 16 6.4 ...
$ Amusium.japonicum : num 0 0 0 0 0 0 0 1.02 0.95 0 ...
$ Amusium.pleuronectes : num 12 104.24 27.46 33.63 1.15 ...
$ Anacanthus.barbatus : num 0 0 0 0 0 0 0 7.5 0 0 ...
$ Anadara.pilula : num 0 0 0 0 0 0 0 32 0 0 ...
$ Anadara.subcrenata : num 0 0 0 0 0 0 1.18 0 0 0 ...
$ Anchisquilla.fasciata : num 0 10.4 0 0 0 ...
$ Anodontostoma.chacunda : num 0 0 0 0 0 0 1.07 1.15 0 0.8 ...
$ Antennarius.nummifer : num 0 0 0 0 0 0 0 0 2.69 0 ...
$ Antennarius.striatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Apistus.alatus : num 0 0 15 0 0 ...
$ Apistus.carinatus : num 1.25 50.65 23.05 72.62 0 ...
$ Apistus.evolans : num 0 132 0 0 0 ...
$ Aploactis.aspera : num 0 0 0 0 0 0 0 0 0 1 ...
$ Apogon.amboinensis : num 0 10.2 0 0 55.4 ...
$ Apogon.carinatus : num 0 0 0 793 0 ...
$ Apogon.cavitiensis : num 0 0 0 0 0 0 0 6 0 0 ...
$ Apogon.ellioti : num 0 12.8 52 8 12.9 ...
$ Apogon.fasciatus : num 0 0 0 0 0 ...
$ Apogon.kiensis : num 0 104 0 115 287 ...
$ Apogon.lineatus : num 0 0 118 306 612 ...
$ Apogon.niger : num 0 0 0 0 140 ...
$ Apogon.poecilopterus : num 0 96 0 0 0 ...
$ Apogon.quadrifasciatus : num 0 34.9 36 432.3 110.1 ...
$ Apogon.semilineatus : num 0 15.3 0 192 24 ...
$ Apogon.sp. : num 0 0 0 0 0 0 0 0 0 0.8 ...
$ Apogon.striatus : num 0 5.45 0 148 260.52 ...
$ Apogon.truncatus : num 0 31.6 43.2 36 63.1 ...
$ Apogonichthys.sp. : num 0 0 0 0 0 0 0 0 0 0 ...
$ Apogonidae : num 0 0 0 1210 107 ...
$ Argyrosomus.japonicus : num 0 0 0 0 0 0 0 0 0 6.86 ...
$ Ariomma.indica : num 0 0 0 0 0 1.11 0 0 0 0 ...
$ Ariosoma.anago : num 0 0 0 0 3.91 0 0 0 0 0 ...
$ Aristeomorpha.foliacea : num 0 0 0 0 0 0 0 0 0 0 ...
$ Arius.maculatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Arius.sinensis : num 0 0 0 0 0 0 0 0 0 0.86 ...
$ Arius.thalassinus : num 0 0 0 0 0 0 0 0 16 13.6 ...
$ Arius.venosus : num 0 0 0 26 0 0 0 0 0 25 ...
$ Arnoglossus.japonicus : num 0 0 0 0 0 ...
$ Arothron.caeruleopunctatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Aseraggodes.kobensis : num 0 0 0 326 0 ...
$ Astrapogon.stellatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Atelomycterus.marmoratus : num 0 0 0 0 0 0 0 0 0 2.67 ...
$ Atropus.atropos : num 0 0 0 0 0.95 0.95 0 0 0 0 ...
$ Atule.mate : num 0 0 0.86 2.23 10.47 ...
$ Atypopenaeus.stenodactylus : num 0 0 0 0 41.7 ...
$ Aulopareia.unicolor : num 0 0 0 0 0 0 0 1 0 0 ...
$ Bathycallionymus.kaianus : num 3.87 0 0 304.69 0 ...
$ Batrachomoeus.trispinosus : num 0 0 0 0 0 ...
$ Bothus.myriaster : num 0 1.09 0 83.48 0 ...
$ Brachirus.panoides : num 0 16 0 0 0 ...
$ Brachypleura.novaezeelandiae : num 0 0 322 396 145 ...
$ Bregmaceros.japonicus : num 0 0 0 0 0 0 0 0 0 8 ...
$ Bregmaceros.macclellandii : num 0 0 27.4 37.6 66.4 ...
$ Bufonaria.rana : num 0 0 0 0 0 ...
$ Calappa.clypeata : num 0 0 0 0 0 0 0 1 0 0 ...
$ Calappa.hepatica : num 1.03 0 0 0 0 0 0 0 0 76.8 ...
$ Calappa.philagius : num 0 0 0 0 0.9 0.9 0 0 0 1 ...
$ Callionymidae : num 0 0 0 30 0 0 0 0 0 30 ...
$ Callionymus.filamentosus : num 0 13.71 0.86 154.84 0 ...
$ Callionymus.japonicus : num 0 0 0 0 67.4 ...
$ Callionymus.meridionalis : num 0 0 0 0 0 ...
$ Callionymus.planus : num 0 0 0 0 0 0 0 360 256 1.94 ...
$ Callionymus.sp. : num 0 312 382 140 0 ...
$ Callionymus.virgis : num 61.5 0 116.2 0 0 ...
$ Callogobius.maculipinnis : num 0 0 0 0 0 0 0 0 0 0 ...
$ Carangoides.chrysophrys : num 0 20.43 0 1.05 0 ...
$ Carangoides.malabaricus : num 2.45 0.86 1.71 0 1.02 ...
$ Carangoides.praeustus : num 0 0 0 0 0 0 0 0 2 0 ...
$ Caranx.sexfasciatus : num 0 0 0 0 0 0 0 0 0 0 ...
$ Carcinoscorpius.rotundicauda : num 0 0 0 0 0 0 0 0 0 2.77 ...
$ Carinosquilla.carinata : num 0.97 1.09 0 0 0 0 0 0 0 0 ...
$ Carinosquilla.multicarinata : num 0 1 0 31 52.7 ...
$ Centriscus.cristatus : num 0 16 0 1 2.18 ...
$ Centriscus.scutatus : num 0 12 0 0 0 0 0 11.5 10 0 ...
$ Cephalopholis.boenak : num 0.97 0 0 0 0 0 0 0 0 0 ...
有人可以帮我解释一下如何运行SIMPER吗？
感谢您的时间，
SEAN