pf_archive-class objectR/pf_access.R
pf_access_history.RdThis function accesses and simplifies the `history' list in a pf_archive-class object.
pf_access_history(archive, bathy = NULL)A pf_archive-class object.
(optional) A raster that defines the grid across the area over which particle filtering was applied. If unsupplied, this is extracted from archive if available.
The function returns a dataframe that defines, for each time step (`timestep'), particle samples (`cell_id'), associated probabilities (`cell_pr') and, if bathy is available, cell coordinates (`cell_x', `cell_y' and `cell_z').
From the `history' element of a pf_archive-class object, this function extracts particle samples as a dataframe with columns for time steps, cell IDs, cell probabilities and coordinates (if bathy is available).
pf_access_history(dat_dcpf_histories)
#> timestep cell_id cell_pr cell_x cell_y cell_z
#> 1 1 2921 1.312336e-04 136.97954 136.97954 136.97954
#> 2 1 3159 2.364016e-04 137.04983 137.04983 137.04983
#> 3 1 3237 1.312336e-04 137.88798 137.88798 137.88798
#> 4 1 3243 2.425569e-04 133.69964 133.69964 133.69964
#> 5 1 3318 1.942855e-04 136.58845 136.58845 136.58845
#> 6 1 3320 2.525012e-04 135.27935 135.27935 135.27935
#> 7 1 3320 2.525012e-04 135.27935 135.27935 135.27935
#> 8 1 3396 3.947544e-05 137.20907 137.20907 137.20907
#> 9 1 3559 9.359471e-05 134.48285 134.48285 134.48285
#> 10 1 3722 1.808832e-05 134.01992 134.01992 134.01992
#> 11 2 3078 1.876176e-04 138.39286 138.39286 138.39286
#> 12 2 3079 1.786695e-04 137.60779 137.60779 137.60779
#> 13 2 3157 2.174004e-04 138.53295 138.53295 138.53295
#> 14 2 3243 1.663445e-05 133.69964 133.69964 133.69964
#> 15 2 3315 2.174004e-04 138.55210 138.55210 138.55210
#> 16 2 3475 1.498497e-04 137.08812 137.08812 137.08812
#> 17 2 3477 1.498497e-04 135.95305 135.95305 135.95305
#> 18 2 3478 1.114181e-04 135.38552 135.38552 135.38552
#> 19 2 3723 2.358249e-04 133.47765 133.47765 133.47765
#> 20 2 3961 3.630254e-05 136.28141 136.28141 136.28141
#> 21 3 3157 2.105803e-04 138.53295 138.53295 138.53295
#> 22 3 3166 1.569277e-04 133.69382 133.69382 133.69382
#> 23 3 3240 1.647869e-04 135.79381 135.79381 135.79381
#> 24 3 3317 1.959173e-04 137.24300 137.24300 137.24300
#> 25 3 3396 2.039494e-04 137.20907 137.20907 137.20907
#> 26 3 3402 1.909455e-04 133.54282 133.54282 133.54282
#> 27 3 3406 4.721224e-05 133.14012 133.14012 133.14012
#> 28 3 3956 4.721224e-05 139.05928 139.05928 139.05928
#> 29 3 3963 1.647869e-04 135.17026 135.17026 135.17026
#> 30 3 3963 1.647869e-04 135.17026 135.17026 135.17026
#> 31 4 3006 1.826367e-04 134.06296 134.06296 134.06296
#> 32 4 3238 1.901244e-04 137.18992 137.18992 137.18992
#> 33 4 3317 1.462901e-04 137.24300 137.24300 137.24300
#> 34 4 3398 1.605168e-04 135.98699 135.98699 135.98699
#> 35 4 3399 1.226931e-04 135.37594 135.37594 135.37594
#> 36 4 3565 1.780020e-04 131.98428 131.98428 131.98428
#> 37 4 3568 2.972360e-05 134.61187 134.61187 134.61187
#> 38 4 3641 7.047349e-05 133.98912 133.98912 133.98912
#> 39 4 3801 1.605168e-04 135.13527 135.13527 135.13527
#> 40 4 3887 9.122633e-05 134.05864 134.05864 134.05864
#> 41 5 2843 1.236215e-04 135.61930 135.61930 135.61930
#> 42 5 3005 1.945485e-04 133.75853 133.75853 133.75853
#> 43 5 3009 1.547789e-04 134.97625 134.97625 134.97625
#> 44 5 3075 1.236215e-04 140.74807 140.74807 140.74807
#> 45 5 3235 1.793489e-04 139.28409 139.28409 139.28409
#> 46 5 3400 1.945485e-04 134.76490 134.76490 134.76490
#> 47 5 3405 1.236215e-04 132.38837 132.38837 132.38837
#> 48 5 3719 9.956193e-05 135.64673 135.64673 135.64673
#> 49 5 3889 1.840187e-04 134.28312 134.28312 134.28312
#> 50 5 3963 7.100674e-05 135.17026 135.17026 135.17026
#> 51 6 3000 1.303164e-04 137.33717 137.33717 137.33717
#> 52 6 3008 2.050845e-04 134.67182 134.67182 134.67182
#> 53 6 3086 2.019373e-04 133.87839 133.87839 133.87839
#> 54 6 3317 1.890617e-04 137.24300 137.24300 137.24300
#> 55 6 3318 4.240359e-05 136.58845 136.58845 136.58845
#> 56 6 3329 1.049538e-04 135.31153 135.31153 135.31153
#> 57 6 3397 7.485220e-05 136.59803 136.59803 136.59803
#> 58 6 3637 1.890617e-04 136.14046 136.14046 136.14046
#> 59 6 3641 1.553795e-04 133.98912 133.98912 133.98912
#> 60 6 3886 1.553795e-04 133.94639 133.94639 133.94639
#> 61 7 2917 2.097557e-04 140.46788 140.46788 140.46788
#> 62 7 2921 2.726068e-04 136.97954 136.97954 136.97954
#> 63 7 3083 5.027690e-06 134.46750 134.46750 134.46750
#> 64 7 3089 2.202607e-04 135.06007 135.06007 135.06007
#> 65 7 3238 1.759216e-04 137.18992 137.18992 137.18992
#> 66 7 3247 2.097557e-04 134.08207 134.08207 134.08207
#> 67 7 3493 1.010473e-04 138.84399 138.84399 138.84399
#> 68 7 3560 2.097557e-04 133.94945 133.94945 133.94945
#> 69 7 3568 2.097557e-04 134.61187 134.61187 134.61187
#> 70 7 3635 2.618707e-04 137.21613 137.21613 137.21613
#> 71 8 3898 1.152372e-05 129.29372 129.29372 129.29372
#> 72 8 3898 1.152372e-05 129.29372 129.29372 129.29372
#> 73 8 3899 4.633050e-06 127.54158 127.54158 127.54158
#> 74 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 75 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 76 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 77 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 78 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 79 8 3977 9.706081e-06 129.34083 129.34083 129.34083
#> 80 8 3978 4.633050e-06 127.45341 127.45341 127.45341
#> 81 9 4063 7.149016e-05 115.49957 115.49957 115.49957
#> 82 9 4142 2.310167e-04 115.14084 115.14084 115.14084
#> 83 9 4142 4.406128e-04 115.14084 115.14084 115.14084
#> 84 9 4221 2.310167e-04 115.05267 115.05267 115.05267
#> 85 9 4221 2.310167e-04 115.05267 115.05267 115.05267
#> 86 9 4300 2.310167e-04 115.23507 115.23507 115.23507
#> 87 9 4301 9.550208e-05 112.80651 112.80651 112.80651
#> 88 9 4301 1.161212e-04 112.80651 112.80651 112.80651
#> 89 9 4301 1.161212e-04 112.80651 112.80651 112.80651
#> 90 9 4380 5.380996e-05 113.12420 113.12420 113.12420
#> 91 10 4303 1.052208e-03 107.94940 107.94940 107.94940
#> 92 10 4303 1.052208e-03 107.94940 107.94940 107.94940
#> 93 10 4304 5.392584e-04 105.52084 105.52084 105.52084
#> 94 10 4462 8.647521e-04 105.61508 105.61508 105.61508
#> 95 10 4462 1.052208e-03 105.61508 105.61508 105.61508
#> 96 10 4463 7.252655e-04 102.91595 102.91595 102.91595
#> 97 10 4545 2.601637e-04 94.73041 94.73041 94.73041
#> 98 10 4622 2.359938e-04 100.85219 100.85219 100.85219
#> 99 10 4783 6.059906e-05 92.84905 92.84905 92.84905
#> 100 10 4858 1.258733e-05 107.21004 107.21004 107.21004
#> 101 11 4228 2.570111e-04 96.41540 96.41540 96.41540
#> 102 11 4387 5.872840e-04 94.50041 94.50041 94.50041
#> 103 11 4389 4.536843e-04 88.67418 88.67418 88.67418
#> 104 11 4547 2.833335e-04 89.41252 89.41252 89.41252
#> 105 11 4548 2.833335e-04 86.75919 86.75919 86.75919
#> 106 11 4783 2.570111e-04 92.84905 92.84905 92.84905
#> 107 11 4861 9.417657e-04 97.08341 97.08341 97.08341
#> 108 11 4862 2.833335e-04 93.70787 93.70787 93.70787
#> 109 11 4862 1.223956e-03 93.70787 93.70787 93.70787
#> 110 11 4864 7.898565e-04 86.95679 86.95679 86.95679
#> 111 12 4389 1.338321e-03 88.67418 88.67418 88.67418
#> 112 12 4469 1.429464e-03 86.39002 86.39002 86.39002
#> 113 12 4548 1.475939e-03 86.75919 86.75919 86.75919
#> 114 12 4705 1.663311e-04 89.15583 89.15583 89.15583
#> 115 12 4707 6.858919e-04 84.32463 84.32463 84.32463
#> 116 12 4709 5.298601e-04 79.53754 79.53754 79.53754
#> 117 12 4943 1.429464e-03 87.81561 87.81561 87.81561
#> 118 12 5104 9.224773e-04 79.67062 79.67062 79.67062
#> 119 12 5106 9.224773e-04 74.12384 74.12384 74.12384
#> 120 12 5265 1.367964e-04 72.85097 72.85097 72.85097
#> 121 13 4552 9.293680e-04 76.14586 76.14586 76.14586
#> 122 13 4867 1.509693e-03 79.23674 79.23674 79.23674
#> 123 13 4871 1.509693e-03 70.70170 70.70170 70.70170
#> 124 13 4952 8.782483e-05 66.67346 66.67346 66.67346
#> 125 13 5026 1.816027e-03 76.02283 76.02283 76.02283
#> 126 13 5029 1.375888e-03 70.40090 70.40090 70.40090
#> 127 13 5185 1.788159e-03 74.43990 74.43990 74.43990
#> 128 13 5266 1.816027e-03 71.07040 71.07040 71.07040
#> 129 13 5345 1.375888e-03 71.26204 71.26204 71.26204
#> 130 13 5429 6.628176e-04 63.38557 63.38557 63.38557
#> 131 14 4636 1.353681e-03 63.11225 63.11225 63.11225
#> 132 14 4716 6.530796e-04 61.62966 61.62966 61.62966
#> 133 14 4956 5.924068e-04 57.18188 57.18188 57.18188
#> 134 14 5034 2.641320e-03 61.03102 61.03102 61.03102
#> 135 14 5036 1.353681e-03 55.69928 55.69928 55.69928
#> 136 14 5196 6.530796e-04 53.83588 53.83588 53.83588
#> 137 14 5273 1.353681e-03 59.40138 59.40138 59.40138
#> 138 14 5513 1.353681e-03 56.11490 56.11490 56.11490
#> 139 14 5590 2.641320e-03 59.28117 59.28117 59.28117
#> 140 14 5830 5.924068e-04 55.44025 55.44025 55.44025
#> 141 15 4717 4.175310e-03 57.48378 57.48378 57.48378
#> 142 15 4798 3.471003e-03 51.78779 51.78779 51.78779
#> 143 15 4880 1.523914e-03 41.81090 41.81090 41.81090
#> 144 15 4956 4.244902e-03 57.18188 57.18188 57.18188
#> 145 15 4958 2.653108e-03 48.68758 48.68758 48.68758
#> 146 15 5200 9.517100e-04 37.95396 37.95396 37.95396
#> 147 15 5280 1.972672e-03 37.89623 37.89623 37.89623
#> 148 15 5672 3.471003e-03 55.28290 55.28290 55.28290
#> 149 15 5752 3.849103e-03 54.12580 54.12580 54.12580
#> 150 15 6069 3.163367e-03 52.65030 52.65030 52.65030
#> 151 16 4560 3.759398e-03 48.28139 48.28139 48.28139
#> 152 16 4560 4.667874e-03 48.28139 48.28139 48.28139
#> 153 16 4719 7.233304e-03 49.19202 49.19202 49.19202
#> 154 16 4959 7.346035e-03 44.44043 44.44043 44.44043
#> 155 16 5119 3.470716e-03 42.17400 42.17400 42.17400
#> 156 16 5279 3.470716e-03 41.67489 41.67489 41.67489
#> 157 16 5360 1.130838e-03 37.83849 37.83849 37.83849
#> 158 16 5835 4.667874e-03 49.26139 49.26139 49.26139
#> 159 16 6314 1.225586e-04 44.29383 44.29383 44.29383
#> 160 16 6389 3.759398e-03 47.28266 47.28266 47.28266
#> 161 17 4880 9.615385e-03 41.81090 41.81090 41.81090
#> 162 17 5119 1.777196e-02 42.17400 42.17400 42.17400
#> 163 17 5279 1.910206e-02 41.67489 41.67489 41.67489
#> 164 17 5280 1.878890e-02 37.89623 37.89623 37.89623
#> 165 17 5360 1.850057e-02 37.83849 37.83849 37.83849
#> 166 17 5440 1.732096e-02 37.78075 37.78075 37.78075
#> 167 17 5519 1.732096e-02 40.92623 40.92623 40.92623
#> 168 17 6237 2.892335e-03 41.63400 41.63400 41.63400
#> 169 17 6240 1.325318e-03 37.20337 37.20337 37.20337
#> 170 17 6396 1.732096e-02 41.46088 41.46088 41.46088
#> 171 18 5200 2.466742e-02 37.95396 37.95396 37.95396
#> 172 18 5360 2.505186e-02 37.83849 37.83849 37.83849
#> 173 18 5439 2.369594e-02 41.17578 41.17578 41.17578
#> 174 18 5520 2.369594e-02 37.72301 37.72301 37.72301
#> 175 18 5599 2.309462e-02 40.67668 40.67668 40.67668
#> 176 18 6159 2.309462e-02 38.92980 38.92980 38.92980
#> 177 18 6238 2.505186e-02 40.15712 40.15712 40.15712
#> 178 18 6318 2.466742e-02 39.71575 39.71575 39.71575
#> 179 18 6319 2.309462e-02 38.43069 38.43069 38.43069
#> 180 18 6320 2.505186e-02 37.14563 37.14563 37.14563