calc.dist: Calculate intersample distances for a set of X-Y coordinates
In sesem: Spatially Explicit Structural Equation Modeling
Description
Usage
Arguments
Details
Value
Author(s)
References
See Also
Examples
Description
calc.dist calculates and stores the distance matrix for all X-Y pairs. It works on a dataset where the first two columns are x and y coordinates
Usage
1
calc.dist(datafile)
Arguments
datafile
a dataset where the first two columns are x and y coordinates. Further columns can contain observed variables for subsequent modeling; these are ignored here.
Details
datafile is a dataset where the first two columns are x and y coordinates. If data are distributed on only one dimension (i.e. along a linear transect) one of the columns should contain zeroes.
Value
a vector containing distances between each pair of samples in the input data
Author(s)
Kerrie Mengersen, Eric Lamb
References
Lamb, E. G., K. Mengersen, K. J. Stewart, U. Attanayake, and S. D. Siciliano. 2014. Spatially explicit structural equation modeling. Ecology 95:2434-2442.
See Also
Examples
1
2
3
4
Example output
[1] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[19] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[37] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212
[55] 216 220 224 228 232 236 0 4 8 12 16 20 24 28 32 36 40 44
[73] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[91] 120 124 128 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188
[109] 192 196 200 204 208 212 216 220 224 228 232 0 4 8 12 16 20 24
[127] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[145] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[163] 172 176 180 184 188 192 196 200 204 208 212 216 220 224 228 0 4 8
[181] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[199] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[217] 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212 216 220 224
[235] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[253] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[271] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212
[289] 216 220 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[307] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[325] 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204
[343] 208 212 216 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[361] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[379] 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200
[397] 204 208 212 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[415] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[433] 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200
[451] 204 208 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[469] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[487] 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204
[505] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[523] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[541] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 0 4 8
[559] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[577] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[595] 156 160 164 168 172 176 180 184 188 192 196 0 4 8 12 16 20 24
[613] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[631] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[649] 172 176 180 184 188 192 0 4 8 12 16 20 24 28 32 36 40 44
[667] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[685] 120 124 128 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188
[703] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[721] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[739] 144 148 152 156 160 164 168 172 176 180 184 0 4 8 12 16 20 24
[757] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[775] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[793] 172 176 180 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[811] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[829] 132 136 140 144 148 152 156 160 164 168 172 176 0 4 8 12 16 20
[847] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[865] 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164
[883] 168 172 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[901] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[919] 136 140 144 148 152 156 160 164 168 0 4 8 12 16 20 24 28 32
[937] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[955] 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 0 4 8
[973] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[991] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[1009] 156 160 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1027] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[1045] 136 140 144 148 152 156 0 4 8 12 16 20 24 28 32 36 40 44
[1063] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[1081] 120 124 128 132 136 140 144 148 152 0 4 8 12 16 20 24 28 32
[1099] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1117] 108 112 116 120 124 128 132 136 140 144 148 0 4 8 12 16 20 24
[1135] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1153] 100 104 108 112 116 120 124 128 132 136 140 144 0 4 8 12 16 20
[1171] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1189] 96 100 104 108 112 116 120 124 128 132 136 140 0 4 8 12 16 20
[1207] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1225] 96 100 104 108 112 116 120 124 128 132 136 0 4 8 12 16 20 24
[1243] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1261] 100 104 108 112 116 120 124 128 132 0 4 8 12 16 20 24 28 32
[1279] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1297] 108 112 116 120 124 128 0 4 8 12 16 20 24 28 32 36 40 44
[1315] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[1333] 120 124 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1351] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 0 4 8
[1369] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[1387] 84 88 92 96 100 104 108 112 116 0 4 8 12 16 20 24 28 32
[1405] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1423] 108 112 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1441] 64 68 72 76 80 84 88 92 96 100 104 108 0 4 8 12 16 20
[1459] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1477] 96 100 104 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1495] 60 64 68 72 76 80 84 88 92 96 100 0 4 8 12 16 20 24
[1513] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1531] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[1549] 72 76 80 84 88 92 0 4 8 12 16 20 24 28 32 36 40 44
[1567] 48 52 56 60 64 68 72 76 80 84 88 0 4 8 12 16 20 24
[1585] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 0 4 8
[1603] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[1621] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[1639] 72 76 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1657] 64 68 72 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1675] 60 64 68 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1693] 60 64 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1711] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 0 4 8
[1729] 12 16 20 24 28 32 36 40 44 48 52 0 4 8 12 16 20 24
[1747] 28 32 36 40 44 48 0 4 8 12 16 20 24 28 32 36 40 44
[1765] 0 4 8 12 16 20 24 28 32 36 40 0 4 8 12 16 20 24
[1783] 28 32 36 0 4 8 12 16 20 24 28 32 0 4 8 12 16 20
[1801] 24 28 0 4 8 12 16 20 24 0 4 8 12 16 20 0 4 8
[1819] 12 16 0 4 8 12 0 4 8 0 4 0
sesem documentation built on May 1, 2019, 9:17 p.m.
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Description Usage Arguments Details Value Author(s) References See Also Examples
Description
calc.dist calculates and stores the distance matrix for all X-Y pairs. It works on a dataset where the first two columns are x and y coordinates
Usage
1 | calc.dist(datafile)
|
Arguments
datafile |
a dataset where the first two columns are x and y coordinates. Further columns can contain observed variables for subsequent modeling; these are ignored here. |
Details
datafile is a dataset where the first two columns are x and y coordinates. If data are distributed on only one dimension (i.e. along a linear transect) one of the columns should contain zeroes.
Value
a vector containing distances between each pair of samples in the input data
Author(s)
Kerrie Mengersen, Eric Lamb
References
Lamb, E. G., K. Mengersen, K. J. Stewart, U. Attanayake, and S. D. Siciliano. 2014. Spatially explicit structural equation modeling. Ecology 95:2434-2442.
See Also
Examples
1 2 3 4 |
Example output
[1] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[19] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[37] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212
[55] 216 220 224 228 232 236 0 4 8 12 16 20 24 28 32 36 40 44
[73] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[91] 120 124 128 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188
[109] 192 196 200 204 208 212 216 220 224 228 232 0 4 8 12 16 20 24
[127] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[145] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[163] 172 176 180 184 188 192 196 200 204 208 212 216 220 224 228 0 4 8
[181] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[199] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[217] 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212 216 220 224
[235] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[253] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[271] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204 208 212
[289] 216 220 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[307] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[325] 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204
[343] 208 212 216 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[361] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[379] 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200
[397] 204 208 212 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[415] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[433] 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200
[451] 204 208 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[469] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[487] 136 140 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 204
[505] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[523] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[541] 144 148 152 156 160 164 168 172 176 180 184 188 192 196 200 0 4 8
[559] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[577] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[595] 156 160 164 168 172 176 180 184 188 192 196 0 4 8 12 16 20 24
[613] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[631] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[649] 172 176 180 184 188 192 0 4 8 12 16 20 24 28 32 36 40 44
[667] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[685] 120 124 128 132 136 140 144 148 152 156 160 164 168 172 176 180 184 188
[703] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[721] 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140
[739] 144 148 152 156 160 164 168 172 176 180 184 0 4 8 12 16 20 24
[757] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[775] 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 168
[793] 172 176 180 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[811] 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128
[829] 132 136 140 144 148 152 156 160 164 168 172 176 0 4 8 12 16 20
[847] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[865] 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164
[883] 168 172 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[901] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[919] 136 140 144 148 152 156 160 164 168 0 4 8 12 16 20 24 28 32
[937] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[955] 108 112 116 120 124 128 132 136 140 144 148 152 156 160 164 0 4 8
[973] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[991] 84 88 92 96 100 104 108 112 116 120 124 128 132 136 140 144 148 152
[1009] 156 160 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1027] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 124 128 132
[1045] 136 140 144 148 152 156 0 4 8 12 16 20 24 28 32 36 40 44
[1063] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[1081] 120 124 128 132 136 140 144 148 152 0 4 8 12 16 20 24 28 32
[1099] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1117] 108 112 116 120 124 128 132 136 140 144 148 0 4 8 12 16 20 24
[1135] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1153] 100 104 108 112 116 120 124 128 132 136 140 144 0 4 8 12 16 20
[1171] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1189] 96 100 104 108 112 116 120 124 128 132 136 140 0 4 8 12 16 20
[1207] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1225] 96 100 104 108 112 116 120 124 128 132 136 0 4 8 12 16 20 24
[1243] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1261] 100 104 108 112 116 120 124 128 132 0 4 8 12 16 20 24 28 32
[1279] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1297] 108 112 116 120 124 128 0 4 8 12 16 20 24 28 32 36 40 44
[1315] 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104 108 112 116
[1333] 120 124 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1351] 64 68 72 76 80 84 88 92 96 100 104 108 112 116 120 0 4 8
[1369] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[1387] 84 88 92 96 100 104 108 112 116 0 4 8 12 16 20 24 28 32
[1405] 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96 100 104
[1423] 108 112 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1441] 64 68 72 76 80 84 88 92 96 100 104 108 0 4 8 12 16 20
[1459] 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92
[1477] 96 100 104 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1495] 60 64 68 72 76 80 84 88 92 96 100 0 4 8 12 16 20 24
[1513] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 88 92 96
[1531] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[1549] 72 76 80 84 88 92 0 4 8 12 16 20 24 28 32 36 40 44
[1567] 48 52 56 60 64 68 72 76 80 84 88 0 4 8 12 16 20 24
[1585] 28 32 36 40 44 48 52 56 60 64 68 72 76 80 84 0 4 8
[1603] 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68 72 76 80
[1621] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60 64 68
[1639] 72 76 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1657] 64 68 72 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1675] 60 64 68 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56
[1693] 60 64 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 60
[1711] 0 4 8 12 16 20 24 28 32 36 40 44 48 52 56 0 4 8
[1729] 12 16 20 24 28 32 36 40 44 48 52 0 4 8 12 16 20 24
[1747] 28 32 36 40 44 48 0 4 8 12 16 20 24 28 32 36 40 44
[1765] 0 4 8 12 16 20 24 28 32 36 40 0 4 8 12 16 20 24
[1783] 28 32 36 0 4 8 12 16 20 24 28 32 0 4 8 12 16 20
[1801] 24 28 0 4 8 12 16 20 24 0 4 8 12 16 20 0 4 8
[1819] 12 16 0 4 8 12 0 4 8 0 4 0
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