Get distances between samples in your `strollur object
Source:R/RcppExports.R
xdev_get_sample_distances.RdGet distances between samples in your strollur::strollur object
Examples
data <- strollur::miseq_sop_example()
#> Added 2425 sequences.
#> Assigned 2425 sequence abundances.
#> Assigned 2425 sequence taxonomies.
#> Assigned 531 otu bins.
#> Assigned 2425 asv bins.
#> Assigned 63 phylotype bins.
#> Assigned 19 samples to treatments.
#> Assigned 171 samples distances.
#> Assigned 531 otu bin taxonomies.
#> Assigned 531 otu bin representative sequences.
#> Added a metadata report.
#> Added 2 resource references.
#> Added a contigs_report report.
strollur::xdev_get_sample_distances(data)
#> sample1 sample2 distance
#> 1 F3D1 F3D0 0.468085
#> 2 F3D141 F3D0 0.528455
#> 3 F3D141 F3D1 0.553191
#> 4 F3D142 F3D0 0.565041
#> 5 F3D142 F3D1 0.597458
#> 6 F3D142 F3D141 0.506726
#> 7 F3D143 F3D0 0.556034
#> 8 F3D143 F3D1 0.590090
#> 9 F3D143 F3D141 0.463415
#> 10 F3D143 F3D142 0.549763
#> 11 F3D144 F3D0 0.555556
#> 12 F3D144 F3D1 0.575000
#> 13 F3D144 F3D141 0.471111
#> 14 F3D144 F3D142 0.537118
#> 15 F3D144 F3D143 0.468599
#> 16 F3D145 F3D0 0.552239
#> 17 F3D145 F3D1 0.575875
#> 18 F3D145 F3D141 0.466667
#> 19 F3D145 F3D142 0.522634
#> 20 F3D145 F3D143 0.470852
#> 21 F3D145 F3D144 0.483607
#> 22 F3D146 F3D0 0.471311
#> 23 F3D146 F3D1 0.480519
#> 24 F3D146 F3D141 0.424107
#> 25 F3D146 F3D142 0.491228
#> 26 F3D146 F3D143 0.483721
#> 27 F3D146 F3D144 0.476395
#> 28 F3D146 F3D145 0.471774
#> 29 F3D147 F3D0 0.515789
#> 30 F3D147 F3D1 0.547101
#> 31 F3D147 F3D141 0.484962
#> 32 F3D147 F3D142 0.540741
#> 33 F3D147 F3D143 0.531250
#> 34 F3D147 F3D144 0.488806
#> 35 F3D147 F3D145 0.473310
#> 36 F3D147 F3D146 0.455224
#> 37 F3D148 F3D0 0.520000
#> 38 F3D148 F3D1 0.552632
#> 39 F3D148 F3D141 0.458167
#> 40 F3D148 F3D142 0.534884
#> 41 F3D148 F3D143 0.474576
#> 42 F3D148 F3D144 0.480469
#> 43 F3D148 F3D145 0.441509
#> 44 F3D148 F3D146 0.439216
#> 45 F3D148 F3D147 0.400000
#> 46 F3D149 F3D0 0.469697
#> 47 F3D149 F3D1 0.525097
#> 48 F3D149 F3D141 0.413223
#> 49 F3D149 F3D142 0.523622
#> 50 F3D149 F3D143 0.474359
#> 51 F3D149 F3D144 0.456000
#> 52 F3D149 F3D145 0.452830
#> 53 F3D149 F3D146 0.400810
#> 54 F3D149 F3D147 0.405018
#> 55 F3D149 F3D148 0.399254
#> 56 F3D150 F3D0 0.471545
#> 57 F3D150 F3D1 0.518828
#> 58 F3D150 F3D141 0.424779
#> 59 F3D150 F3D142 0.510730
#> 60 F3D150 F3D143 0.469767
#> 61 F3D150 F3D144 0.450216
#> 62 F3D150 F3D145 0.434426
#> 63 F3D150 F3D146 0.411255
#> 64 F3D150 F3D147 0.402299
#> 65 F3D150 F3D148 0.396000
#> 66 F3D150 F3D149 0.355372
#> 67 F3D2 F3D0 0.409449
#> 68 F3D2 F3D1 0.414938
#> 69 F3D2 F3D141 0.494118
#> 70 F3D2 F3D142 0.568702
#> 71 F3D2 F3D143 0.560484
#> 72 F3D2 F3D144 0.548872
#> 73 F3D2 F3D145 0.514493
#> 74 F3D2 F3D146 0.457031
#> 75 F3D2 F3D147 0.486395
#> 76 F3D2 F3D148 0.484099
#> 77 F3D2 F3D149 0.439560
#> 78 F3D2 F3D150 0.463320
#> 79 F3D3 F3D0 0.517699
#> 80 F3D3 F3D1 0.450495
#> 81 F3D3 F3D141 0.548387
#> 82 F3D3 F3D142 0.563380
#> 83 F3D3 F3D143 0.545455
#> 84 F3D3 F3D144 0.565611
#> 85 F3D3 F3D145 0.573222
#> 86 F3D3 F3D146 0.490741
#> 87 F3D3 F3D147 0.559387
#> 88 F3D3 F3D148 0.560000
#> 89 F3D3 F3D149 0.524793
#> 90 F3D3 F3D150 0.524664
#> 91 F3D3 F3D2 0.467811
#> 92 F3D5 F3D0 0.430493
#> 93 F3D5 F3D1 0.392157
#> 94 F3D5 F3D141 0.500000
#> 95 F3D5 F3D142 0.534247
#> 96 F3D5 F3D143 0.514706
#> 97 F3D5 F3D144 0.517857
#> 98 F3D5 F3D145 0.491525
#> 99 F3D5 F3D146 0.413953
#> 100 F3D5 F3D147 0.507634
#> 101 F3D5 F3D148 0.481781
#> 102 F3D5 F3D149 0.469136
#> 103 F3D5 F3D150 0.429224
#> 104 F3D5 F3D2 0.382609
#> 105 F3D5 F3D3 0.405263
#> 106 F3D6 F3D0 0.420601
#> 107 F3D6 F3D1 0.420091
#> 108 F3D6 F3D141 0.480349
#> 109 F3D6 F3D142 0.545064
#> 110 F3D6 F3D143 0.500000
#> 111 F3D6 F3D144 0.516949
#> 112 F3D6 F3D145 0.485830
#> 113 F3D6 F3D146 0.425439
#> 114 F3D6 F3D147 0.490775
#> 115 F3D6 F3D148 0.464844
#> 116 F3D6 F3D149 0.427419
#> 117 F3D6 F3D150 0.412281
#> 118 F3D6 F3D2 0.375000
#> 119 F3D6 F3D3 0.434146
#> 120 F3D6 F3D5 0.344828
#> 121 F3D7 F3D0 0.509009
#> 122 F3D7 F3D1 0.455000
#> 123 F3D7 F3D141 0.511962
#> 124 F3D7 F3D142 0.519608
#> 125 F3D7 F3D143 0.536082
#> 126 F3D7 F3D144 0.544186
#> 127 F3D7 F3D145 0.559829
#> 128 F3D7 F3D146 0.466667
#> 129 F3D7 F3D147 0.535433
#> 130 F3D7 F3D148 0.534979
#> 131 F3D7 F3D149 0.516807
#> 132 F3D7 F3D150 0.509174
#> 133 F3D7 F3D2 0.484979
#> 134 F3D7 F3D3 0.395480
#> 135 F3D7 F3D5 0.375000
#> 136 F3D7 F3D6 0.415000
#> 137 F3D8 F3D0 0.394737
#> 138 F3D8 F3D1 0.414747
#> 139 F3D8 F3D141 0.489083
#> 140 F3D8 F3D142 0.528384
#> 141 F3D8 F3D143 0.502347
#> 142 F3D8 F3D144 0.519149
#> 143 F3D8 F3D145 0.512000
#> 144 F3D8 F3D146 0.399103
#> 145 F3D8 F3D147 0.469925
#> 146 F3D8 F3D148 0.490347
#> 147 F3D8 F3D149 0.441767
#> 148 F3D8 F3D150 0.454936
#> 149 F3D8 F3D2 0.390041
#> 150 F3D8 F3D3 0.451456
#> 151 F3D8 F3D5 0.321608
#> 152 F3D8 F3D6 0.339623
#> 153 F3D8 F3D7 0.376289
#> 154 F3D9 F3D0 0.400844
#> 155 F3D9 F3D1 0.441048
#> 156 F3D9 F3D141 0.485232
#> 157 F3D9 F3D142 0.535565
#> 158 F3D9 F3D143 0.524444
#> 159 F3D9 F3D144 0.532520
#> 160 F3D9 F3D145 0.496094
#> 161 F3D9 F3D146 0.418803
#> 162 F3D9 F3D147 0.478261
#> 163 F3D9 F3D148 0.481203
#> 164 F3D9 F3D149 0.439689
#> 165 F3D9 F3D150 0.432773
#> 166 F3D9 F3D2 0.402390
#> 167 F3D9 F3D3 0.448598
#> 168 F3D9 F3D5 0.363208
#> 169 F3D9 F3D6 0.294393
#> 170 F3D9 F3D7 0.415459
#> 171 F3D9 F3D8 0.311628