[BioC] Converting \"data.frame\" to appropriate format for tau.dist() in bioDist library
Nicole A Thompson [guest]
guest at bioconductor.org
Thu Aug 15 12:24:49 CEST 2013
Hello,
I am a graduate student in evolutionary primatology at Columbia University and a guest to the Bioconductor help mailing list.
I am trying to test how long a subject (female monkey) must be observed in order to capture an accurate representation of her sociality over a year. I decided to compare the similarity of 5 pair-wise matrices of social behavior using a matrix correlation test. These matrices describe dyadic social relationships between monkeys after 1, 2, 3, 4, and 12 months of observation. The different interaction types are rates of proximity while resting, test$Beep == "R-grm", and rates of grooming or test$Beep == "Grm".
Due to the nature of our data collection, R-grm matrices are ASYMMETRIC, therefore I am unable to use the mantel() function within the vegan library or any other matrix correlation test whose arguments are "dist" objects, which only show the bottom half of a distance matrix.
In order to deal with the asymmetry of my matrices, I am trying to perform a row-wise matrix correlation test (or Kr test) using the output of the tau.dist() function in the bioDist package, but I am having a difficult time formatting my data appropriately. The only literature on the tau.dist function that I have found is in the bioDist pdf. From what I understand, tau.dist() calculates Kendall's tau for each row of the matrix compared with another. As such, I have tried to construct a numeric matrix where each row represents the relationships of a single subject (e.g. "Arte", in example) as observed after 1 month (row 1), 2 months (row 2), etc.
I have truncated the number of partners (columns) for the example below. Forgive the lengthiness if altogether unnecessary.
I greatly appreciate anyone's insight or instruction on the matter.
Many thanks,
Nicole A. Thompson
Department of Ecology, Evolution, and Environmental Biology, Columbia University
-- output of sessionInfo():
> sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] vegan_2.0-7 permute_0.7-0 bioDist_1.30.0 KernSmooth_2.23-10 Biobase_2.18.0
[6] BiocGenerics_0.4.0
loaded via a namespace (and not attached):
[1] grid_2.15.1 lattice_0.20-15 tools_2.15.1
> library(bioDist)
> test<- read.csv("Social sample test.csv", header=T)
> str(test)
'data.frame': 255 obs. of 20 variables:
$ Beep : Factor w/ 3 levels "Grm","R-grm",..: 2 2 2 2 2 2 2 2 2 2 ...
$ Months : int 1 1 1 1 1 1 1 1 1 1 ...
$ Subject: Factor w/ 17 levels "Arte","Bif","Bill",..: 1 2 3 4 5 6 7 8 9 10 ...
$ Arte : Factor w/ 69 levels "*","0","0.011090163",..: 1 2 2 68 2 2 2 2 2 2 ...
$ Bif : Factor w/ 52 levels "*","0","0.011137098",..: 2 1 2 2 2 2 2 2 2 2 ...
$ Bill : Factor w/ 37 levels "*","0","0.010856585",..: 2 2 1 2 2 2 2 2 2 2 ...
$ Blaz : Factor w/ 60 levels "*","0","0.010856585",..: 2 2 2 1 2 2 2 2 2 2 ...
$ Bonn : Factor w/ 58 levels "*","0","0.010877842",..: 2 2 2 2 1 53 2 2 2 2 ...
$ Bow : Factor w/ 76 levels "*","0","0.011030223",..: 2 2 2 2 66 1 2 2 43 2 ...
$ Dixi : Factor w/ 51 levels "*","0","0.011041184",..: 2 2 2 2 2 2 1 2 30 2 ...
$ Elle : Factor w/ 42 levels "*","0","0.011048503",..: 2 2 2 2 2 2 2 1 2 2 ...
$ Flet : Factor w/ 60 levels "*","0","0.011058277",..: 2 2 2 2 2 2 2 2 1 2 ...
$ Gaun : Factor w/ 47 levels "*","0","0.011086475",..: 2 2 2 2 2 2 2 2 2 1 ...
$ Kami : Factor w/ 54 levels "*","0","0.011185682",..: 2 47 2 2 2 33 2 2 2 2 ...
$ KK : Factor w/ 60 levels "*","0","0.011096316",..: 2 2 2 2 2 2 2 2 2 51 ...
$ Pans : Factor w/ 52 levels "*","0","0.010873111",..: 2 2 28 2 2 2 2 2 2 2 ...
$ Quan : Factor w/ 51 levels "*","0","0.010873111",..: 2 2 2 2 2 2 2 2 2 2 ...
$ Sauc : Factor w/ 53 levels "*","0","0.013294337",..: 2 2 30 2 2 2 2 2 2 2 ...
$ Trim : Factor w/ 77 levels "*","0","0.011069294",..: 2 2 2 2 2 2 2 2 2 2 ...
$ Twin : Factor w/ 65 levels "*","0","0.011090163",..: 2 2 2 2 2 2 35 2 2 2 ...
> test
Beep Months Subject Arte Bif Bill Blaz Bonn Bow
1 R-grm 1 Arte * 0 0 0 0 0
2 R-grm 1 Bif 0 * 0 0 0 0
3 R-grm 1 Bill 0 0 * 0 0 0
4 R-grm 1 Blaz 1.940755873 0 0 * 0 0
5 R-grm 1 Bonn 0 0 0 0 * 0.3125
6 R-grm 1 Bow 0 0 0 0 0.3125 *
7 R-grm 1 Dixi 0 0 0 0 0 0
8 R-grm 1 Elle 0 0 0 0 0 0
9 R-grm 1 Flet 0 0 0 0 0 0.107526882
10 R-grm 1 Gaun 0 0 0 0 0 0
11 R-grm 1 Kami 0 0 0 0 0 0
12 R-grm 1 KK 0 0 0 0 0 0
13 R-grm 1 Pans 0 0 0 0 0 0
14 R-grm 1 Quan 0 0 0 0 0 0.208333333
15 R-grm 1 Sauc 0 0 0 0 0 0.114942529
16 R-grm 1 Trim 0 0 0 0 0 0.114942529
17 R-grm 1 Twin 0 0 0 0 0 0
18 R-grm 2 Arte * 0.169779287 0 0 0 0.333889816
19 R-grm 2 Bif 0 * 0 0 0.114942529 0
20 R-grm 2 Bill 0 0 * 0 0 0
21 R-grm 2 Blaz 2.459474567 0 0 * 0 0
22 R-grm 2 Bonn 0 0 0 0 * 0.338983051
23 R-grm 2 Bow 0 0 0 0 0.169491525 *
24 R-grm 2 Dixi 0 0 0 0 0 0
25 R-grm 2 Elle 0 0 0 0 0 0
26 R-grm 2 Flet 0.278241514 0.11299435 0 0 0 0.055555556
27 R-grm 2 Gaun 0 0 0 0 0 0
28 R-grm 2 Kami 0 0 0 0 0 0
29 R-grm 2 KK 0 0 0 0 0 0
30 R-grm 2 Pans 0 0 0 0 0 0
31 R-grm 2 Quan 0 0.111111111 0 0 0 0.109289617
32 R-grm 2 Sauc 0 0 0 0 0 0.109289617
33 R-grm 2 Trim 0 0 0 0.56753689 0 0.056497175
34 R-grm 2 Twin 0 0 0 0 0 0
35 R-grm 3 Arte * 0.077609624 0 0.036778227 0 0.151687524
36 R-grm 3 Bif 0 * 0 0.3756574 0.037878788 0
37 R-grm 3 Bill 0 0 * 0 0 0
38 R-grm 3 Blaz 1.728576683 0 0 * 0 0
39 R-grm 3 Bonn 0 0 0 0 * 0.185185185
40 R-grm 3 Bow 0 0 0 0 0.111111111 *
41 R-grm 3 Dixi 0 0 0 0 0 0
42 R-grm 3 Elle 0.037078235 0 0 0 0 0
43 R-grm 3 Flet 0.151687524 0.07751938 0 0 0 0.037878788
44 R-grm 3 Gaun 0 0 0 0 0 0
45 R-grm 3 Kami 0 0 0 0 0 0
46 R-grm 3 KK 0 0 0 0 0 0
47 R-grm 3 Pans 0 0 0 0 0 0
48 R-grm 3 Quan 0.037495313 0.076628352 0 0.072674419 0 0.074906367
49 R-grm 3 Sauc 0 0 0 0 0 0.036643459
50 R-grm 3 Trim 0.038819876 0 0 0.338218715 0 0.038774719
51 R-grm 3 Twin 0 0 0 0 0 0
52 R-grm 4 Arte * 0.057126535 0 0.027181299 0 0.113090189
53 R-grm 4 Bif 0 * 0 0.278862242 0.028058361 0
54 R-grm 4 Bill 0 0 * 0 0 0
55 R-grm 4 Blaz 1.277521066 0 0 * 0 0.248481502
56 R-grm 4 Bonn 0 0 0 0 * 0.138888889
57 R-grm 4 Bow 0 0 0 0 0.083333333 *
58 R-grm 4 Dixi 0 0 0 0 0 0.115174201
59 R-grm 4 Elle 0.027800945 0 0 0 0 0
60 R-grm 4 Flet 0.112139052 0.057570524 0 0 0 0.028490028
61 R-grm 4 Gaun 0 0 0 0 0 0
62 R-grm 4 Kami 0 0 0 0 0 0
63 R-grm 4 KK 0 0 0 0 0 0
64 R-grm 4 Pans 0 0 0 0 0 0.166805671
65 R-grm 4 Quan 0.027800945 0.057077626 0 0.054318305 0 0.056497175
66 R-grm 4 Sauc 0 0 0 0 0 0.027785496
67 R-grm 4 Trim 0.028522533 0 0 0.250626566 0 0.028993911
68 R-grm 4 Twin 0 0 0.163043478 0 0 0
69 R-grm 12 Arte * 0.044179368 0.110448421 0.066269052 0.198807157 0.463883366
70 R-grm 12 Bif 0 * 0.402594498 0.22366361 0.044732722 0.089465444
71 R-grm 12 Bill 0.021263024 0.191367212 * 0.063789071 0 0.021263024
72 R-grm 12 Blaz 1.220053239 0 0 * 0.110913931 0.199645075
73 R-grm 12 Bonn 0.43449924 0.021724962 0 0 * 0.21724962
74 R-grm 12 Bow 0 0 0 0 0.067219359 *
75 R-grm 12 Dixi 0 0.022451729 0.112258644 0.022451729 0.067355186 0.269420745
76 R-grm 12 Elle 0.198106978 0 0.022011886 0.066035659 0.352190183 0.022011886
77 R-grm 12 Flet 0.088888889 0.044444444 0 0 0.288888889 0.955555556
78 R-grm 12 Gaun 0.022123894 0 0.951327434 0 0 0
79 R-grm 12 Kami 0.089166295 0.089166295 0.111457869 1.404369148 0 0.312082033
80 R-grm 12 KK 0.021829295 0.349268719 0 0.240122244 0 0.08731718
81 R-grm 12 Pans 0.173648795 0.173648795 0.151942696 0.130236596 0.130236596 0.130236596
82 R-grm 12 Quan 0.021786492 0.043572985 0 0.261437908 0.196078431 0.043572985
83 R-grm 12 Sauc 0 0 0 0 0 0.02625361
84 R-grm 12 Trim 0.067704807 0.112841345 0 0.203114421 0.022568269 0.045136538
85 R-grm 12 Twin 0.445434298 0 0.13363029 0.08908686 0.244988864 0.556792873
86 Grm 1 Arte * 0 0 0.204290092 0 0
87 Grm 1 Bif 0 * 0 0 0 0
88 Grm 1 Bill 0 0 * 0 0 0
89 Grm 1 Blaz 0.204290092 0 0 * 0 0
90 Grm 1 Bonn 0 0 0 0 * 0.104166667
91 Grm 1 Bow 0 0 0 0 0.104166667 *
92 Grm 1 Dixi 0 0 0 0 0 0
93 Grm 1 Elle 0 0 0 0 0 0
94 Grm 1 Flet 0 0 0 0 0 0
95 Grm 1 Gaun 0 0 0 0 0 0
96 Grm 1 Kami 0 0 0 0 0 0
97 Grm 1 KK 0 0 0 0 0 0
98 Grm 1 Pans 0 0 0 0 0 0
99 Grm 1 Quan 0 0 0 0 0 0
100 Grm 1 Sauc 0 0 0 0 0 0.114942529
101 Grm 1 Trim 0 0 0 0 0 0
102 Grm 1 Twin 0 0 0 0 0 0
103 Grm 2 Arte * 0.056593096 0 0.279485746 0 0.111296605
104 Grm 2 Bif 0.056593096 * 0 0 0.057471264 0
105 Grm 2 Bill 0 0 * 0 0 0
106 Grm 2 Blaz 0.279485746 0 0 * 0 0
107 Grm 2 Bonn 0 0.057471264 0 0 * 0.056497175
108 Grm 2 Bow 0.111296605 0 0 0 0.056497175 *
109 Grm 2 Dixi 0 0 0 0 0 0
110 Grm 2 Elle 0 0 0 0 0 0
111 Grm 2 Flet 0.111296605 0 0 0 0 0
112 Grm 2 Gaun 0 0 0 0 0 0
113 Grm 2 Kami 0 0 0 0 0 0
114 Grm 2 KK 0 0 0 0 0 0
115 Grm 2 Pans 0 0 0 0 0 0
116 Grm 2 Quan 0 0 0 0 0 0
117 Grm 2 Sauc 0 0 0 0 0 0.054644809
118 Grm 2 Trim 0 0 0 0.056753689 0 0
119 Grm 2 Twin 0 0 0 0 0 0
120 Grm 3 Arte * 0.038804812 0 0.294225818 0 0.075843762
121 Grm 3 Bif 0.038804812 * 0 0.03756574 0.037878788 0
122 Grm 3 Bill 0 0 * 0 0 0
123 Grm 3 Blaz 0.294225818 0.03756574 0 * 0 0
124 Grm 3 Bonn 0 0.037878788 0 0 * 0.037037037
125 Grm 3 Bow 0.075843762 0 0 0 0.037037037 *
126 Grm 3 Dixi 0 0 0 0 0 0.116595414
127 Grm 3 Elle 0.111234705 0 0 0 0 0
128 Grm 3 Flet 0.075843762 0 0 0 0.037037037 0
129 Grm 3 Gaun 0 0 0 0 0 0
130 Grm 3 Kami 0 0 0 0 0 0
131 Grm 3 KK 0 0 0 0 0 0
132 Grm 3 Pans 0 0 0 0 0 0
133 Grm 3 Quan 0 0 0 0 0 0
134 Grm 3 Sauc 0 0 0 0 0 0.036643459
135 Grm 3 Trim 0.038819876 0 0 0.037579857 0 0
136 Grm 3 Twin 0 0 0 0 0 0
137 Grm 4 Arte * 0.028563268 0 0.217450394 0 0.056545095
138 Grm 4 Bif 0.028563268 * 0 0.027886224 0.028058361 0
139 Grm 4 Bill 0 0 * 0 0 0
140 Grm 4 Blaz 0.217450394 0.027886224 0 * 0 0.027609056
141 Grm 4 Bonn 0 0.028058361 0 0 * 0.027777778
142 Grm 4 Bow 0.056545095 0 0 0.027609056 0.027777778 *
143 Grm 4 Dixi 0 0 0 0 0.027831895 0.143967751
144 Grm 4 Elle 0.083402836 0 0 0 0 0
145 Grm 4 Flet 0.056069526 0 0 0 0.027548209 0
146 Grm 4 Gaun 0 0 0 0 0 0
147 Grm 4 Kami 0 0 0 0 0.027654867 0.028604119
148 Grm 4 KK 0 0 0 0 0 0
149 Grm 4 Pans 0 0 0 0 0 0
150 Grm 4 Quan 0 0 0 0 0 0
151 Grm 4 Sauc 0 0 0 0 0 0.027785496
152 Grm 4 Trim 0.028522533 0 0 0.027847396 0 0
153 Grm 4 Twin 0 0 0.027173913 0 0 0
154 Grm 12 Arte * 0.022227162 0.021668472 0.121748755 0.120481928 0.022246941
155 Grm 12 Bif 0.022227162 * 0.032701112 0.011137098 0.044081993 0.022386389
156 Grm 12 Bill 0.021668472 0.032701112 * 0.010856585 0.021491511 0
157 Grm 12 Blaz 0.121748755 0.011137098 0.010856585 * 0.021951487 0.011147029
158 Grm 12 Bonn 0.120481928 0.044081993 0.021491511 0.021951487 * 0.011030223
159 Grm 12 Bow 0.022246941 0.022386389 0 0.011147029 0.011030223 *
160 Grm 12 Dixi 0 0 0 0 0.011041184 0.100930806
161 Grm 12 Elle 0.033076075 0 0 0.011048503 0.054668708 0
162 Grm 12 Flet 0.022155755 0 0 0 0.032956168 0.08925583
163 Grm 12 Gaun 0 0 0.097582132 0 0 0
164 Grm 12 Kami 0 0.04465781 0.043530308 0.25572604 0.033006931 0.033523299
165 Grm 12 KK 0.054896794 0.055236412 0 0.055011552 0 0.055285272
166 Grm 12 Pans 0 0 0 0.043883708 0 0
167 Grm 12 Quan 0.021937041 0 0.043043151 0 0.010877842 0
168 Grm 12 Sauc 0 0.093507881 0 0 0 0.013294337
169 Grm 12 Trim 0.011163206 0.134801168 0 0.033560801 0.011069294 0.011243535
170 Grm 12 Twin 0.011090163 0 0.054389209 0.044454323 0.043989882 0.055847202
171 R-grm2 1 Arte * 0 0 1.940755873 0 0
172 R-grm2 1 Bif 0 * 0 0 0 0
173 R-grm2 1 Bill 0 0 * 0 0 0
174 R-grm2 1 Blaz 0 0 0 * 0 0
175 R-grm2 1 Bonn 0 0 0 0 * 0.3125
176 R-grm2 1 Bow 0 0 0 0 0.3125 *
177 R-grm2 1 Dixi 0 0 0 0 0 0
178 R-grm2 1 Elle 0 0 0 0 0 0
179 R-grm2 1 Flet 0 0 0 0 0 0
180 R-grm2 1 Gaun 0 0 0 0 0 0
181 R-grm2 1 Kami 0 0.240096038 0 0 0 0.111982083
182 R-grm2 1 KK 0 0 0 0 0 0
183 R-grm2 1 Pans 0 0 0.098039216 0 0 0
184 R-grm2 1 Quan 0 0 0 0 0 0
185 R-grm2 1 Sauc 0 0 0.101010101 0 0 0
186 R-grm2 1 Trim 0 0 0 0 0 0
187 R-grm2 1 Twin 0 0 0 0 0 0
188 R-grm2 2 Arte * 0 0 2.459474567 0 0
189 R-grm2 2 Bif 0.169779287 * 0 0 0 0
190 R-grm2 2 Bill 0 0 * 0 0 0
191 R-grm2 2 Blaz 0 0 0 * 0 0
192 R-grm2 2 Bonn 0 0.114942529 0 0 * 0.169491525
193 R-grm2 2 Bow 0.333889816 0 0 0 0.338983051 *
194 R-grm2 2 Dixi 0 0 0 0 0 0
195 R-grm2 2 Elle 0 0 0 0 0 0
196 R-grm2 2 Flet 0.389538119 0 0 0 0 0
197 R-grm2 2 Gaun 0 0 0 0 0 0
198 R-grm2 2 Kami 0 0.113442995 0 0 0 0.055772448
199 R-grm2 2 KK 0 0 0 0 0 0
200 R-grm2 2 Pans 0 0 0.051282051 0 0 0
201 R-grm2 2 Quan 0 0 0 0 0 0
202 R-grm2 2 Sauc 0 0 0.051282051 0 0 0
203 R-grm2 2 Trim 0 0 0 0 0.114942529 0
204 R-grm2 2 Twin 0 0 0 0 0 0
205 R-grm2 3 Arte * 0 0 1.728576683 0 0
206 R-grm2 3 Bif 0.077609624 * 0 0 0 0
207 R-grm2 3 Bill 0 0 * 0 0 0
208 R-grm2 3 Blaz 0.036778227 0.3756574 0 * 0 0
209 R-grm2 3 Bonn 0 0.037878788 0 0 * 0.111111111
210 R-grm2 3 Bow 0.151687524 0 0 0 0.185185185 *
211 R-grm2 3 Dixi 0 0 0 0 0 0.505246794
212 R-grm2 3 Elle 0 0 0 0 0 0
213 R-grm2 3 Flet 0.227531286 0 0 0 0.518518519 0
214 R-grm2 3 Gaun 0 0 0 0 0 0
215 R-grm2 3 Kami 0 0.078647267 0 0 0 0.038417211
216 R-grm2 3 KK 0 0 0 0 0 0
217 R-grm2 3 Pans 0 0 0.034399725 0 0 0
218 R-grm2 3 Quan 0 0 0 0.181686047 0 0
219 R-grm2 3 Sauc 0 0 0.034376074 0 0 0
220 R-grm2 3 Trim 0 0 0.036245016 0 0.075786283 0
221 R-grm2 3 Twin 0 0 0 0 0 0
222 R-grm2 4 Arte * 0 0 1.277521066 0 0
223 R-grm2 4 Bif 0.057126535 * 0 0 0 0
224 R-grm2 4 Bill 0 0 * 0 0 0
225 R-grm2 4 Blaz 0.027181299 0.278862242 0 * 0 0
226 R-grm2 4 Bonn 0 0.028058361 0 0 * 0.083333333
227 R-grm2 4 Bow 0.113090189 0 0 0.248481502 0.138888889 *
228 R-grm2 4 Dixi 0 0 0 0 0.111327581 0.374316153
229 R-grm2 4 Elle 0 0 0 0 0 0
230 R-grm2 4 Flet 0.168208579 0 0 0 0.385674931 0
231 R-grm2 4 Gaun 0 0 0 0 0 0
232 R-grm2 4 Kami 0 0.057803468 0 0 0.138274336 0.028604119
233 R-grm2 4 KK 0 0 0.052910053 0 0 0
234 R-grm2 4 Pans 0 0 0.026267402 0 0 0
235 R-grm2 4 Quan 0 0 0 0.135795763 0 0
236 R-grm2 4 Sauc 0 0 0.02625361 0 0 0
237 R-grm2 4 Trim 0 0 0.027329872 0 0.056038106 0
238 R-grm2 4 Twin 0 0 0 0 0 0
239 R-grm2 12 Arte * 0 0.021263024 1.220053239 0.43449924 0
240 R-grm2 12 Bif 0.044179368 * 0.191367212 0 0.021724962 0
241 R-grm2 12 Bill 0.110448421 0.402594498 * 0 0 0
242 R-grm2 12 Blaz 0.066269052 0.22366361 0.063789071 * 0 0
243 R-grm2 12 Bonn 0.198807157 0.044732722 0 0.110913931 * 0.067219359
244 R-grm2 12 Bow 0.463883366 0.089465444 0.021263024 0.199645075 0.21724962 *
245 R-grm2 12 Dixi 0 0 0 0.022182786 0.10862481 0.358503249
246 R-grm2 12 Elle 0 0 0.063789071 0 0.152074734 0
247 R-grm2 12 Flet 0.132538105 0 0 0.110913931 0.304149468 0.470535514
248 R-grm2 12 Gaun 0 0.290762693 0.021263024 0.044365572 0 0
249 R-grm2 12 Kami 0.441793682 0.089465444 0.148841165 1.708074534 0.238974582 0.112032265
250 R-grm2 12 KK 0.198807157 0.044732722 0.042526047 0.310559006 0 0.448129061
251 R-grm2 12 Pans 0 0 0.021263024 0.199645075 0 0
252 R-grm2 12 Quan 0.088358736 0 0.616627684 0.177462289 0 0.044812906
253 R-grm2 12 Sauc 0 1.087843351 0.051374261 0 0 0
254 R-grm2 12 Trim 0.022089684 1.274882577 0.042526047 0.155279503 0.043449924 0
255 R-grm2 12 Twin 0.044179368 0 0.148841165 0.28837622 0.065174886 0.044812906
> R.Arte <- test[test$Beep=="R-grm"&test$Subject=="Arte",4:9]
> R.Arte
Arte Bif Bill Blaz Bonn Bow
1 * 0 0 0 0 0
18 * 0.169779287 0 0 0 0.333889816
35 * 0.077609624 0 0.036778227 0 0.151687524
52 * 0.057126535 0 0.027181299 0 0.113090189
69 * 0.044179368 0.110448421 0.066269052 0.198807157 0.463883366
> tau.dist(R.Arte)
#Error in function (classes, fdef, mtable) :
unable to find an inherited method for function "tau.dist", for signature "data.frame"
> traceback()
3: stop("unable to find an inherited method for function \"", fdef at generic,
"\", for signature ", cnames)
2: function (classes, fdef, mtable)
{
methods <- .findInheritedMethods(classes, fdef, mtable)
if (length(methods) == 1L)
return(methods[[1L]])
else if (length(methods) == 0L) {
cnames <- paste0("\"", sapply(classes, as.character),
"\"", collapse = ", ")
stop("unable to find an inherited method for function \"",
fdef at generic, "\", for signature ", cnames)
}
else stop("Internal error in finding inherited methods; didn't return a unique method")
}(list("data.frame"), function (x, ...)
standardGeneric("tau.dist"), <environment>)
1: tau.dist(R.Arte)
> tau.dist(as.matrix(R.Arte))
Error in cor(t(x), method = "kendall") : 'x' must be numeric
> traceback()
5: stop("'x' must be numeric")
4: cor(t(x), method = "kendall")
3: .local(x, ...)
2: tau.dist(as.matrix(R.Arte))
1: tau.dist(as.matrix(R.Arte))
> tau.dist(as.matrix(as.numeric(R.Arte)))
Error in tau.dist(as.matrix(as.numeric(R.Arte))) :
error in evaluating the argument 'x' in selecting a method for function 'tau.dist': Error in as.matrix(as.numeric(R.Arte)) :
(list) object cannot be coerced to type 'double'
> traceback()
1: tau.dist(as.matrix(as.numeric(R.Arte)))
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