This function takes two data frames or matrices and returns a matrix of pairwise Euclidean distances between the two.
Value
Matrix with nrow(x1) rows and nrow(x2) columns. Values are the distance between each row of x1 and row of x2.
Examples
x1 <- data.frame(x=sample(1:30, 30), y=sort(round(100 * rnorm(30))), z=sample(1:30, 30))
x2 <- data.frame(x=1:20, y=round(100 * rnorm(20)), z=sample(1:20, 20))
pairDist(x1, x2)
#> [,1] [,2] [,3] [,4] [,5] [,6] [,7]
#> [1,] 23.79075 44.73254 219.05707 325.01231 215.59685 323.44706 243.298171
#> [2,] 25.31798 45.89118 219.36499 325.24145 215.38106 323.25068 243.164553
#> [3,] 34.55431 29.06888 181.34498 286.48735 176.64088 283.93309 204.249847
#> [4,] 76.22336 53.63767 122.49898 228.37031 118.00847 226.01770 146.061631
#> [5,] 91.97282 69.97142 114.24097 218.55434 110.64809 216.78791 137.240665
#> [6,] 106.30146 83.34867 92.39048 198.22462 88.29496 196.14790 116.034478
#> [7,] 139.14740 116.05602 59.04236 165.03030 56.08921 163.44418 83.318665
#> [8,] 144.73769 121.71278 60.63827 163.42582 59.57348 162.64378 83.743656
#> [9,] 147.97973 125.06398 58.90671 160.85086 57.04384 159.66841 81.030858
#> [10,] 146.49573 123.50708 53.18834 158.41086 49.16299 156.36176 76.295478
#> [11,] 149.12411 126.32102 50.45790 155.64382 45.09989 153.05555 73.280284
#> [12,] 157.70225 135.02963 45.09989 148.38800 37.81534 145.14131 65.741920
#> [13,] 161.61683 138.48827 42.00000 144.90342 41.85690 144.13188 65.145990
#> [14,] 166.70333 143.66976 38.70400 140.29612 37.28270 138.97482 60.216277
#> [15,] 169.05620 146.35231 36.76955 137.80058 28.91366 134.48420 55.497748
#> [16,] 175.69007 152.53852 25.19921 129.28264 26.43861 128.40950 49.020404
#> [17,] 178.75682 155.63097 29.08608 128.32381 31.40064 127.80454 50.099900
#> [18,] 181.99725 159.07231 25.03997 124.36237 20.46949 121.95491 43.023250
#> [19,] 183.80696 160.82910 28.01785 123.98387 27.00000 122.34786 45.000000
#> [20,] 189.95789 167.24533 29.52965 119.33566 22.89105 115.92239 39.899875
#> [21,] 195.17684 171.99128 16.06238 110.81967 24.69818 110.92340 34.554305
#> [22,] 214.01869 191.06805 17.88854 90.55937 20.49390 88.19297 8.944272
#> [23,] 228.03509 205.12191 31.68596 77.00000 34.29286 74.22937 8.717798
#> [24,] 244.93469 221.90539 49.80964 62.76942 53.74942 61.16371 27.294688
#> [25,] 257.45097 234.34590 62.42596 52.63079 67.86015 53.63767 41.291646
#> [26,] 264.57891 241.70436 68.92024 45.08880 70.92249 39.34463 43.520110
#> [27,] 277.26161 254.17514 79.33473 27.65863 84.32082 29.42788 55.982140
#> [28,] 332.08734 309.05825 134.12681 28.72281 138.32570 31.68596 110.118118
#> [29,] 359.85275 336.71501 162.14191 57.62812 167.24234 63.38770 138.888444
#> [30,] 446.05045 423.07210 248.19549 142.45701 252.02579 144.05902 224.002232
#> [,8] [,9] [,10] [,11] [,12] [,13] [,14]
#> [1,] 252.168594 180.20266 208.90428 182.956279 383.09398 321.33938 266.87076
#> [2,] 252.099187 180.09997 208.35067 182.318403 383.01697 321.04517 266.27242
#> [3,] 213.187711 141.70745 169.08282 143.139792 343.59715 281.48357 226.51711
#> [4,] 155.167651 83.44459 111.23399 85.340494 286.25338 224.18965 169.36942
#> [5,] 145.794376 75.16648 103.22790 77.858847 275.60479 213.91120 159.71537
#> [6,] 125.008000 53.03772 81.50460 55.614746 256.04882 194.06442 139.44892
#> [7,] 92.135769 20.61553 50.24938 26.248809 223.11208 161.39703 107.43370
#> [8,] 91.662424 26.64583 53.34791 33.256578 220.65357 159.51802 106.70052
#> [9,] 88.977525 25.63201 50.28916 30.740852 217.73608 156.44488 103.34409
#> [10,] 85.146932 13.63818 42.30839 17.606817 216.02315 154.05194 99.61426
#> [11,] 82.516665 14.59452 38.94868 15.132746 213.46897 151.42985 96.82975
#> [12,] 75.026662 13.30413 30.08322 5.000000 205.55048 143.23756 88.05680
#> [13,] 73.013697 15.65248 36.59235 23.430749 202.36848 141.15594 88.46468
#> [14,] 68.154237 16.76305 31.25700 21.189620 197.37021 135.90070 82.71638
#> [15,] 64.583280 17.00000 20.27313 9.433981 194.56875 132.24598 77.05842
#> [16,] 57.026310 18.60108 23.40940 23.622024 187.13097 125.78553 73.10951
#> [17,] 57.280014 25.23886 28.23119 29.748950 185.54514 124.56725 72.78736
#> [18,] 51.458721 24.77902 14.14214 23.021729 181.24569 119.22248 64.90763
#> [19,] 52.440442 28.87906 22.49444 29.359837 180.55470 119.05461 66.09841
#> [20,] 47.864392 35.56684 17.05872 31.384710 175.05713 112.98230 58.49786
#> [21,] 40.755368 38.40573 27.22132 41.509035 168.51409 107.87493 57.70615
#> [22,] 17.972201 55.47071 28.75761 53.935146 148.39474 86.58522 33.85262
#> [23,] 9.110434 69.72087 42.27292 67.860150 134.68853 73.00000 22.22611
#> [24,] 19.339080 86.01163 59.68249 84.581322 118.42297 57.14893 16.15549
#> [25,] 32.526912 98.92421 73.95945 98.295473 107.17276 48.33218 27.76689
#> [26,] 35.397740 105.80643 77.23341 103.126136 98.93938 36.61967 19.13113
#> [27,] 46.572524 118.15668 91.59148 117.102519 85.11757 25.67100 36.93237
#> [28,] 101.019800 173.00578 145.50945 171.379695 30.28201 32.93934 88.17029
#> [29,] 129.510617 200.84073 174.28999 199.822421 15.52417 62.82515 117.45637
#> [30,] 215.039531 287.05052 259.08686 285.071921 84.43933 146.12324 201.24363
#> [,15] [,16] [,17] [,18] [,19] [,20]
#> [1,] 248.05443 136.40015 302.40040 72.58788 176.03977 234.47175
#> [2,] 247.34187 136.09555 302.02152 70.41307 175.14851 234.07264
#> [3,] 207.51145 97.88258 262.34329 110.56672 135.40310 194.57903
#> [4,] 150.52242 42.53234 205.45072 167.58580 79.43551 138.29317
#> [5,] 140.96099 31.30495 194.59959 178.80716 68.78227 126.41202
#> [6,] 120.65239 13.37909 175.18562 197.26885 49.19350 107.68008
#> [7,] 89.02247 26.47640 142.63239 230.58404 22.40536 75.50497
#> [8,] 88.69047 29.56349 140.21056 234.02137 23.85372 71.95832
#> [9,] 85.19977 32.69557 137.06203 236.82272 20.44505 68.82587
#> [10,] 80.91971 31.71750 135.07405 237.12866 11.18034 67.48333
#> [11,] 78.24960 39.00000 132.94360 240.53482 17.83255 67.38694
#> [12,] 69.11584 45.96738 124.54718 248.17131 11.04536 58.93216
#> [13,] 70.68946 45.63989 121.94261 251.72008 18.97367 53.76802
#> [14,] 64.69158 50.52722 116.58473 256.43128 17.49286 48.25971
#> [15,] 58.04309 55.66866 113.35784 259.05019 15.36229 47.52894
#> [16,] 55.62374 60.26608 106.79419 266.54831 26.73948 39.29377
#> [17,] 55.79426 62.71363 105.29957 268.76198 29.89983 37.37646
#> [18,] 46.36809 66.60330 100.04499 272.03676 27.18455 32.55764
#> [19,] 48.43552 67.74954 99.65440 273.33862 30.54505 31.59114
#> [20,] 39.96248 75.33260 93.79765 279.16124 35.15679 29.03446
#> [21,] 42.53234 79.65551 88.89319 285.87585 45.45327 23.25941
#> [22,] 19.20937 100.25468 68.45436 305.38337 62.12890 18.41195
#> [23,] 15.77973 114.52074 55.44367 319.45422 76.15773 25.82634
#> [24,] 24.45404 129.17430 37.66962 335.14474 90.40465 31.08054
#> [25,] 39.69887 141.41428 29.74895 347.53705 103.58089 44.02272
#> [26,] 38.06573 149.85660 18.81489 355.02817 110.15444 53.03772
#> [27,] 54.65345 162.11416 12.08305 368.31644 123.91126 64.84597
#> [28,] 107.14943 217.18425 51.94228 423.19381 178.47689 119.62023
#> [29,] 136.15800 244.25601 80.28699 450.58739 206.17953 146.59127
#> [30,] 220.29072 331.27330 165.31485 537.11637 292.24818 233.49946
pairDist(x1)
#> [,1] [,2] [,3] [,4] [,5] [,6] [,7]
#> [1,] 0.00000 12.04159 49.17316 98.17332 110.67520 127.42841 160.08123
#> [2,] 12.04159 0.00000 43.32436 97.87237 109.15127 127.15738 160.34026
#> [3,] 49.17316 43.32436 0.00000 62.27359 69.43342 89.54329 122.96341
#> [4,] 98.17332 97.87237 62.27359 0.00000 30.67572 30.82207 63.79655
#> [5,] 110.67520 109.15127 69.43342 30.67572 0.00000 29.17190 57.73214
#> [6,] 127.42841 127.15738 89.54329 30.82207 29.17190 0.00000 33.61547
#> [7,] 160.08123 160.34026 122.96341 63.79655 57.73214 33.61547 0.00000
#> [8,] 164.10058 163.84749 125.23179 72.09022 56.05355 42.15448 22.15852
#> [9,] 167.46343 166.80827 127.42841 75.00667 58.24946 45.01111 24.77902
#> [10,] 167.38877 167.01497 128.25365 70.83078 61.69279 40.21194 11.35782
#> [11,] 170.79813 170.68392 132.77801 73.03424 69.26038 43.97727 15.16575
#> [12,] 179.30421 178.51891 139.22643 81.52300 74.73286 52.21111 24.81935
#> [13,] 181.51033 181.44145 142.90556 87.41853 74.15524 56.67451 26.79552
#> [14,] 186.77794 186.30352 146.99660 92.07606 78.33901 61.30253 31.87475
#> [15,] 190.37332 189.39113 149.51254 93.04837 83.77947 63.30877 34.78505
#> [16,] 196.09437 196.22946 157.95252 100.60318 89.91107 69.93568 37.16181
#> [17,] 198.63031 198.51700 159.72476 104.35516 90.80198 73.55270 42.42641
#> [18,] 202.78314 202.08414 162.36071 106.28735 94.86833 75.80897 45.00000
#> [19,] 204.02206 203.33716 163.54510 108.81636 95.08943 78.10890 47.86439
#> [20,] 210.82220 209.58292 169.01479 114.37657 102.15185 84.33267 55.26301
#> [21,] 215.26263 215.52494 177.27380 120.44916 108.65082 89.76636 57.00877
#> [22,] 235.32531 235.34018 196.78923 138.03623 130.14991 108.18503 75.35250
#> [23,] 249.44338 249.46543 210.88860 152.03289 144.37105 122.32743 89.54329
#> [24,] 265.55037 265.09998 225.37746 169.20106 157.23231 138.66867 106.37199
#> [25,] 277.66707 277.39863 237.87602 182.11260 169.18038 151.41004 118.96638
#> [26,] 285.80763 285.21395 245.35281 188.42505 178.27226 158.41086 126.26163
#> [27,] 298.03356 298.10233 259.13317 201.50930 191.05235 171.18995 138.12313
#> [28,] 353.07506 353.07081 313.86303 256.15620 246.01829 226.02212 193.03368
#> [29,] 380.27359 380.34852 341.09529 284.27803 272.48670 253.79913 220.76685
#> [30,] 467.18198 467.09528 427.58508 370.01757 359.87498 340.01912 307.11073
#> [,8] [,9] [,10] [,11] [,12] [,13] [,14]
#> [1,] 164.100579 167.463429 167.38877 170.79813 179.30421 181.510330 186.777943
#> [2,] 163.847490 166.808273 167.01497 170.68392 178.51891 181.441451 186.303516
#> [3,] 125.231785 127.428411 128.25365 132.77801 139.22643 142.905563 146.996599
#> [4,] 72.090221 75.006666 70.83078 73.03424 81.52300 87.418534 92.076056
#> [5,] 56.053546 58.249464 61.69279 69.26038 74.73286 74.155243 78.339007
#> [6,] 42.154478 45.011110 40.21194 43.97727 52.21111 56.674509 61.302528
#> [7,] 22.158520 24.779023 11.35782 15.16575 24.81935 26.795522 31.874755
#> [8,] 0.000000 6.403124 19.02630 31.89044 33.51119 18.788294 24.062419
#> [9,] 6.403124 0.000000 18.62794 31.87475 31.01612 17.606817 20.832667
#> [10,] 19.026298 18.627936 0.00000 13.37909 16.40122 20.024984 22.912878
#> [11,] 31.890437 31.874755 13.37909 0.00000 13.03840 28.460499 30.364453
#> [12,] 33.511192 31.016125 16.40122 13.03840 0.00000 26.419690 24.657656
#> [13,] 18.788294 17.606817 20.02498 28.46050 26.41969 0.000000 8.124038
#> [14,] 24.062419 20.832667 22.91288 30.36445 24.65766 8.124038 0.000000
#> [15,] 37.429935 33.674916 24.91987 24.53569 12.56981 25.377155 20.149442
#> [16,] 35.468296 34.014703 30.69202 32.63434 28.44293 16.822604 15.000000
#> [17,] 35.142567 32.893768 34.94281 39.82462 34.29286 17.146428 13.564660
#> [18,] 42.731721 39.102430 35.74913 37.05401 27.51363 25.826343 19.104973
#> [19,] 41.279535 37.536649 38.60052 42.53234 33.74907 24.433583 17.521415
#> [20,] 51.971146 47.434165 45.17743 46.36809 35.01428 36.496575 28.879058
#> [21,] 52.962251 51.205468 50.60632 51.94228 46.49731 34.496377 31.400637
#> [22,] 77.129761 74.712783 68.79680 65.13064 58.25805 58.549125 54.055527
#> [23,] 91.241438 88.735562 83.02409 79.03164 72.04165 72.608539 67.985293
#> [24,] 102.722928 99.503769 98.45811 97.59611 88.96629 84.646323 79.164386
#> [25,] 114.043851 111.045036 111.30139 111.08105 102.82509 96.192515 91.109824
#> [26,] 124.791827 121.433109 118.46096 115.88788 107.13543 106.555150 100.866248
#> [27,] 135.959553 133.281657 131.22119 129.01163 121.49897 117.498936 112.756375
#> [28,] 191.115149 188.281704 186.07794 183.31939 175.58474 172.702056 167.779617
#> [29,] 217.092146 214.317521 213.73582 211.97170 204.19109 199.042709 194.273004
#> [30,] 305.067206 302.104287 300.08665 297.05723 289.13838 286.755994 281.710845
#> [,15] [,16] [,17] [,18] [,19] [,20] [,21]
#> [1,] 190.37332 196.09437 198.63031 202.783135 204.022058 210.82220 215.26263
#> [2,] 189.39113 196.22946 198.51700 202.084141 203.337158 209.58292 215.52494
#> [3,] 149.51254 157.95252 159.72476 162.360710 163.545101 169.01479 177.27380
#> [4,] 93.04837 100.60318 104.35516 106.287346 108.816359 114.37657 120.44916
#> [5,] 83.77947 89.91107 90.80198 94.868330 95.089432 102.15185 108.65082
#> [6,] 63.30877 69.93568 73.55270 75.808970 78.108898 84.33267 89.76636
#> [7,] 34.78505 37.16181 42.42641 45.000000 47.864392 55.26301 57.00877
#> [8,] 37.42993 35.46830 35.14257 42.731721 41.279535 51.97115 52.96225
#> [9,] 33.67492 34.01470 32.89377 39.102430 37.536649 47.43416 51.20547
#> [10,] 24.91987 30.69202 34.94281 35.749126 38.600518 45.17743 50.60632
#> [11,] 24.53569 32.63434 39.82462 37.054015 42.532341 46.36809 51.94228
#> [12,] 12.56981 28.44293 34.29286 27.513633 33.749074 35.01428 46.49731
#> [13,] 25.37716 16.82260 17.14643 25.826343 24.433583 36.49658 34.49638
#> [14,] 20.14944 15.00000 13.56466 19.104973 17.521415 28.87906 31.40064
#> [15,] 0.00000 22.69361 26.87006 16.093477 23.086793 22.44994 37.60319
#> [16,] 22.69361 0.00000 10.04988 15.620499 16.431677 27.47726 20.02498
#> [17,] 26.87006 10.04988 0.00000 16.522712 11.445523 26.19160 18.49324
#> [18,] 16.09348 15.62050 16.52271 0.000000 9.273618 12.12436 23.00000
#> [19,] 23.08679 16.43168 11.44552 9.273618 0.000000 15.26434 20.22375
#> [20,] 22.44994 27.47726 26.19160 12.124356 15.264338 0.00000 28.80972
#> [21,] 37.60319 20.02498 18.49324 23.000000 20.223748 28.80972 0.00000
#> [22,] 48.74423 42.08325 44.51966 37.134889 40.211939 35.88872 29.69848
#> [23,] 62.38590 56.16939 57.98276 50.783856 53.301032 47.87484 42.02380
#> [24,] 77.44030 70.07139 67.90434 63.229740 62.161081 57.48913 52.27810
#> [25,] 91.30717 82.06095 79.12648 76.459139 74.337070 71.19691 63.09517
#> [26,] 96.01042 91.30717 90.38805 83.480537 83.958323 76.79844 74.69940
#> [27,] 110.69779 102.06371 100.84642 96.938125 96.358705 92.01087 83.58229
#> [28,] 164.76043 157.25457 156.00641 151.528875 151.105923 145.66400 138.83804
#> [29,] 193.04404 184.23083 182.04944 179.022345 177.586599 173.19931 165.05151
#> [30,] 278.26786 271.40744 269.96481 265.326214 264.835798 258.82233 252.88930
#> [,22] [,23] [,24] [,25] [,26] [,27] [,28]
#> [1,] 235.32531 249.44338 265.55037 277.66707 285.80763 298.03356 353.07506
#> [2,] 235.34018 249.46543 265.09998 277.39863 285.21395 298.10233 353.07081
#> [3,] 196.78923 210.88860 225.37746 237.87602 245.35281 259.13317 313.86303
#> [4,] 138.03623 152.03289 169.20106 182.11260 188.42505 201.50930 256.15620
#> [5,] 130.14991 144.37105 157.23231 169.18038 178.27226 191.05235 246.01829
#> [6,] 108.18503 122.32743 138.66867 151.41004 158.41086 171.18995 226.02212
#> [7,] 75.35250 89.54329 106.37199 118.96638 126.26163 138.12313 193.03368
#> [8,] 77.12976 91.24144 102.72293 114.04385 124.79183 135.95955 191.11515
#> [9,] 74.71278 88.73556 99.50377 111.04504 121.43311 133.28166 188.28170
#> [10,] 68.79680 83.02409 98.45811 111.30139 118.46096 131.22119 186.07794
#> [11,] 65.13064 79.03164 97.59611 111.08105 115.88788 129.01163 183.31939
#> [12,] 58.25805 72.04165 88.96629 102.82509 107.13543 121.49897 175.58474
#> [13,] 58.54912 72.60854 84.64632 96.19252 106.55515 117.49894 172.70206
#> [14,] 54.05553 67.98529 79.16439 91.10982 100.86625 112.75637 167.77962
#> [15,] 48.74423 62.38590 77.44030 91.30717 96.01042 110.69779 164.76043
#> [16,] 42.08325 56.16939 70.07139 82.06095 91.30717 102.06371 157.25457
#> [17,] 44.51966 57.98276 67.90434 79.12648 90.38805 100.84642 156.00641
#> [18,] 37.13489 50.78386 63.22974 76.45914 83.48054 96.93812 151.52888
#> [19,] 40.21194 53.30103 62.16108 74.33707 83.95832 96.35870 151.10592
#> [20,] 35.88872 47.87484 57.48913 71.19691 76.79844 92.01087 145.66400
#> [21,] 29.69848 42.02380 52.27810 63.09517 74.69940 83.58229 138.83804
#> [22,] 0.00000 14.28286 36.01389 49.72927 52.13444 64.17164 118.21167
#> [23,] 14.28286 0.00000 27.58623 40.60788 39.31921 51.24451 104.47009
#> [24,] 36.01389 27.58623 0.00000 15.29706 24.59675 35.34119 89.11229
#> [25,] 49.72927 40.60788 15.29706 0.00000 25.07987 26.28688 78.51751
#> [26,] 52.13444 39.31921 24.59675 25.07987 0.00000 22.22611 69.51259
#> [27,] 64.17164 51.24451 35.34119 26.28688 22.22611 0.00000 55.26301
#> [28,] 118.21167 104.47009 89.11229 78.51751 69.51259 55.26301 0.00000
#> [29,] 147.13939 133.91789 115.91807 103.35860 98.78259 82.99398 32.46537
#> [30,] 232.03664 218.08485 202.67708 191.52023 182.32115 169.38418 114.16217
#> [,29] [,30]
#> [1,] 380.27359 467.18198
#> [2,] 380.34852 467.09528
#> [3,] 341.09529 427.58508
#> [4,] 284.27803 370.01757
#> [5,] 272.48670 359.87498
#> [6,] 253.79913 340.01912
#> [7,] 220.76685 307.11073
#> [8,] 217.09215 305.06721
#> [9,] 214.31752 302.10429
#> [10,] 213.73582 300.08665
#> [11,] 211.97170 297.05723
#> [12,] 204.19109 289.13838
#> [13,] 199.04271 286.75599
#> [14,] 194.27300 281.71084
#> [15,] 193.04404 278.26786
#> [16,] 184.23083 271.40744
#> [17,] 182.04944 269.96481
#> [18,] 179.02234 265.32621
#> [19,] 177.58660 264.83580
#> [20,] 173.19931 258.82233
#> [21,] 165.05151 252.88930
#> [22,] 147.13939 232.03664
#> [23,] 133.91789 218.08485
#> [24,] 115.91807 202.67708
#> [25,] 103.35860 191.52023
#> [26,] 98.78259 182.32115
#> [27,] 82.99398 169.38418
#> [28,] 32.46537 114.16217
#> [29,] 0.00000 90.17206
#> [30,] 90.17206 0.00000