tests/testthat/_snaps/enw_nowcast_summary.md
In epiforecasts/epinowcast: Flexible Hierarchical Nowcasting
enw_nowcast_summary() can extract the summarised nowcast as expected
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-03 2021-08-22 1 149 DE 00+ 149
2: 2021-08-04 2021-08-22 1 166 DE 00+ 166
3: 2021-08-05 2021-08-22 1 133 DE 00+ 133
4: 2021-08-06 2021-08-22 1 137 DE 00+ 137
5: 2021-08-07 2021-08-22 1 139 DE 00+ 139
6: 2021-08-08 2021-08-22 1 97 DE 00+ 97
7: 2021-08-09 2021-08-22 1 58 DE 00+ 58
8: 2021-08-10 2021-08-22 1 175 DE 00+ 175
9: 2021-08-11 2021-08-22 1 233 DE 00+ 233
10: 2021-08-12 2021-08-22 1 237 DE 00+ 237
11: 2021-08-13 2021-08-22 1 204 DE 00+ 204
12: 2021-08-14 2021-08-22 1 189 DE 00+ 189
13: 2021-08-15 2021-08-22 1 125 DE 00+ 125
14: 2021-08-16 2021-08-22 1 98 DE 00+ 98
15: 2021-08-17 2021-08-22 1 242 DE 00+ 242
16: 2021-08-18 2021-08-22 1 223 DE 00+ 223
17: 2021-08-19 2021-08-22 1 202 DE 00+ 202
18: 2021-08-20 2021-08-22 1 171 DE 00+ 171
19: 2021-08-21 2021-08-22 1 112 DE 00+ 112
20: 2021-08-22 2021-08-22 1 45 DE 00+ 45
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
1: 1 19 0 149 149 0 0 149 149 149 149
2: 1 18 0 167 167 1 1 166 166 167 167
3: 1 17 0 136 136 2 1 133 134 135 136
4: 1 16 0 141 141 2 2 138 139 140 141
5: 1 15 0 146 146 3 3 141 143 144 146
6: 1 14 0 104 103 3 3 99 101 102 103
7: 1 13 0 63 62 2 1 59 61 62 62
8: 1 12 0 185 185 4 4 180 182 183 185
9: 1 11 0 256 255 6 6 246 250 253 255
10: 1 10 0 267 267 8 7 255 261 264 267
11: 1 9 0 236 236 8 9 223 229 232 236
12: 1 8 0 231 230 10 10 216 222 226 230
13: 1 7 0 165 165 10 10 150 157 160 165
14: 1 6 0 129 128 9 9 116 122 126 128
15: 1 5 0 293 292 12 12 275 283 288 292
16: 1 4 0 293 292 16 15 270 280 286 292
17: 1 3 0 291 290 19 19 263 274 284 290
18: 1 2 0 296 292 29 28 255 271 282 292
19: 1 1 0 309 304 51 47 237 267 285 304
20: 1 0 1 381 371 104 96 241 294 332 371
q65 q80 q95
1: 149 149 149
2: 168 168 170
3: 136 137 139
4: 142 143 145
5: 147 148 151
6: 105 106 109
7: 63 65 67
8: 186 188 192
9: 258 261 267
10: 270 274 281
11: 239 243 252
12: 234 239 249
13: 168 173 183
14: 132 136 144
15: 297 303 313
16: 298 306 320
17: 298 306 325
18: 304 319 348
19: 323 349 406
20: 405 459 569
enw_nowcast_summary() can extract summarised nowcast with custom quantiles
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-03 2021-08-22 1 149 DE 00+ 149
2: 2021-08-04 2021-08-22 1 166 DE 00+ 166
3: 2021-08-05 2021-08-22 1 133 DE 00+ 133
4: 2021-08-06 2021-08-22 1 137 DE 00+ 137
5: 2021-08-07 2021-08-22 1 139 DE 00+ 139
6: 2021-08-08 2021-08-22 1 97 DE 00+ 97
7: 2021-08-09 2021-08-22 1 58 DE 00+ 58
8: 2021-08-10 2021-08-22 1 175 DE 00+ 175
9: 2021-08-11 2021-08-22 1 233 DE 00+ 233
10: 2021-08-12 2021-08-22 1 237 DE 00+ 237
11: 2021-08-13 2021-08-22 1 204 DE 00+ 204
12: 2021-08-14 2021-08-22 1 189 DE 00+ 189
13: 2021-08-15 2021-08-22 1 125 DE 00+ 125
14: 2021-08-16 2021-08-22 1 98 DE 00+ 98
15: 2021-08-17 2021-08-22 1 242 DE 00+ 242
16: 2021-08-18 2021-08-22 1 223 DE 00+ 223
17: 2021-08-19 2021-08-22 1 202 DE 00+ 202
18: 2021-08-20 2021-08-22 1 171 DE 00+ 171
19: 2021-08-21 2021-08-22 1 112 DE 00+ 112
20: 2021-08-22 2021-08-22 1 45 DE 00+ 45
cum_prop_reported delay prop_reported mean median sd mad q5 q50 q95
1: 1 19 0 149 149 0 0 149 149 149
2: 1 18 0 167 167 1 1 166 167 170
3: 1 17 0 136 136 2 1 133 136 139
4: 1 16 0 141 141 2 2 138 141 145
5: 1 15 0 146 146 3 3 141 146 151
6: 1 14 0 104 103 3 3 99 103 109
7: 1 13 0 63 62 2 1 59 62 67
8: 1 12 0 185 185 4 4 180 185 192
9: 1 11 0 256 255 6 6 246 255 267
10: 1 10 0 267 267 8 7 255 267 281
11: 1 9 0 236 236 8 9 223 236 252
12: 1 8 0 231 230 10 10 216 230 249
13: 1 7 0 165 165 10 10 150 165 183
14: 1 6 0 129 128 9 9 116 128 144
15: 1 5 0 293 292 12 12 275 292 313
16: 1 4 0 293 292 16 15 270 292 320
17: 1 3 0 291 290 19 19 263 290 325
18: 1 2 0 296 292 29 28 255 292 348
19: 1 1 0 309 304 51 47 237 304 406
20: 1 0 1 381 371 104 96 241 371 569
enw_nowcast_summary() can extract the summarised nowcast as expected when a delay smaller than specified was modelled
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-01 2021-08-20 1 77 DE 00+ 77
2: 2021-08-02 2021-08-21 1 59 DE 00+ 59
3: 2021-08-03 2021-08-22 1 149 DE 00+ 149
4: 2021-08-04 2021-08-22 1 166 DE 00+ 166
5: 2021-08-05 2021-08-22 1 133 DE 00+ 133
6: 2021-08-06 2021-08-22 1 137 DE 00+ 137
7: 2021-08-07 2021-08-22 1 139 DE 00+ 139
8: 2021-08-08 2021-08-22 1 97 DE 00+ 97
9: 2021-08-09 2021-08-22 1 58 DE 00+ 58
10: 2021-08-10 2021-08-22 1 175 DE 00+ 175
11: 2021-08-11 2021-08-22 1 233 DE 00+ 233
12: 2021-08-12 2021-08-22 1 237 DE 00+ 237
13: 2021-08-13 2021-08-22 1 204 DE 00+ 204
14: 2021-08-14 2021-08-22 1 189 DE 00+ 189
15: 2021-08-15 2021-08-22 1 125 DE 00+ 125
16: 2021-08-16 2021-08-22 1 98 DE 00+ 98
17: 2021-08-17 2021-08-22 1 242 DE 00+ 242
18: 2021-08-18 2021-08-22 1 223 DE 00+ 223
19: 2021-08-19 2021-08-22 1 202 DE 00+ 202
20: 2021-08-20 2021-08-22 1 171 DE 00+ 171
21: 2021-08-21 2021-08-22 1 112 DE 00+ 112
22: 2021-08-22 2021-08-22 1 45 DE 00+ 45
reference_date report_date .group max_confirm location age_group confirm
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
1: 1 19 0 77 77 0 0 77 77 77 77
2: 1 19 0 59 59 0 0 59 59 59 59
3: 1 19 0 149 149 0 0 149 149 149 149
4: 1 18 0 167 167 1 1 166 166 167 167
5: 1 17 0 136 136 2 1 133 134 135 136
6: 1 16 0 141 141 2 2 138 139 140 141
7: 1 15 0 146 146 3 3 141 143 144 146
8: 1 14 0 104 103 3 3 99 101 102 103
9: 1 13 0 63 62 2 1 59 61 62 62
10: 1 12 0 185 185 4 4 180 182 183 185
11: 1 11 0 256 255 6 6 246 250 253 255
12: 1 10 0 267 267 8 7 255 261 264 267
13: 1 9 0 236 236 8 9 223 229 232 236
14: 1 8 0 231 230 10 10 216 222 226 230
15: 1 7 0 165 165 10 10 150 157 160 165
16: 1 6 0 129 128 9 9 116 122 126 128
17: 1 5 0 293 292 12 12 275 283 288 292
18: 1 4 0 293 292 16 15 270 280 286 292
19: 1 3 0 291 290 19 19 263 274 284 290
20: 1 2 0 296 292 29 28 255 271 282 292
21: 1 1 0 309 304 51 47 237 267 285 304
22: 1 0 1 381 371 104 96 241 294 332 371
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
q65 q80 q95
1: 77 77 77
2: 59 59 59
3: 149 149 149
4: 168 168 170
5: 136 137 139
6: 142 143 145
7: 147 148 151
8: 105 106 109
9: 63 65 67
10: 186 188 192
11: 258 261 267
12: 270 274 281
13: 239 243 252
14: 234 239 249
15: 168 173 183
16: 132 136 144
17: 297 303 313
18: 298 306 320
19: 298 306 325
20: 304 319 348
21: 323 349 406
22: 405 459 569
q65 q80 q95
epiforecasts/epinowcast documentation built on Feb. 3, 2025, 4:17 p.m.
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enw_nowcast_summary() can extract the summarised nowcast as expected
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-03 2021-08-22 1 149 DE 00+ 149
2: 2021-08-04 2021-08-22 1 166 DE 00+ 166
3: 2021-08-05 2021-08-22 1 133 DE 00+ 133
4: 2021-08-06 2021-08-22 1 137 DE 00+ 137
5: 2021-08-07 2021-08-22 1 139 DE 00+ 139
6: 2021-08-08 2021-08-22 1 97 DE 00+ 97
7: 2021-08-09 2021-08-22 1 58 DE 00+ 58
8: 2021-08-10 2021-08-22 1 175 DE 00+ 175
9: 2021-08-11 2021-08-22 1 233 DE 00+ 233
10: 2021-08-12 2021-08-22 1 237 DE 00+ 237
11: 2021-08-13 2021-08-22 1 204 DE 00+ 204
12: 2021-08-14 2021-08-22 1 189 DE 00+ 189
13: 2021-08-15 2021-08-22 1 125 DE 00+ 125
14: 2021-08-16 2021-08-22 1 98 DE 00+ 98
15: 2021-08-17 2021-08-22 1 242 DE 00+ 242
16: 2021-08-18 2021-08-22 1 223 DE 00+ 223
17: 2021-08-19 2021-08-22 1 202 DE 00+ 202
18: 2021-08-20 2021-08-22 1 171 DE 00+ 171
19: 2021-08-21 2021-08-22 1 112 DE 00+ 112
20: 2021-08-22 2021-08-22 1 45 DE 00+ 45
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
1: 1 19 0 149 149 0 0 149 149 149 149
2: 1 18 0 167 167 1 1 166 166 167 167
3: 1 17 0 136 136 2 1 133 134 135 136
4: 1 16 0 141 141 2 2 138 139 140 141
5: 1 15 0 146 146 3 3 141 143 144 146
6: 1 14 0 104 103 3 3 99 101 102 103
7: 1 13 0 63 62 2 1 59 61 62 62
8: 1 12 0 185 185 4 4 180 182 183 185
9: 1 11 0 256 255 6 6 246 250 253 255
10: 1 10 0 267 267 8 7 255 261 264 267
11: 1 9 0 236 236 8 9 223 229 232 236
12: 1 8 0 231 230 10 10 216 222 226 230
13: 1 7 0 165 165 10 10 150 157 160 165
14: 1 6 0 129 128 9 9 116 122 126 128
15: 1 5 0 293 292 12 12 275 283 288 292
16: 1 4 0 293 292 16 15 270 280 286 292
17: 1 3 0 291 290 19 19 263 274 284 290
18: 1 2 0 296 292 29 28 255 271 282 292
19: 1 1 0 309 304 51 47 237 267 285 304
20: 1 0 1 381 371 104 96 241 294 332 371
q65 q80 q95
1: 149 149 149
2: 168 168 170
3: 136 137 139
4: 142 143 145
5: 147 148 151
6: 105 106 109
7: 63 65 67
8: 186 188 192
9: 258 261 267
10: 270 274 281
11: 239 243 252
12: 234 239 249
13: 168 173 183
14: 132 136 144
15: 297 303 313
16: 298 306 320
17: 298 306 325
18: 304 319 348
19: 323 349 406
20: 405 459 569
enw_nowcast_summary() can extract summarised nowcast with custom quantiles
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-03 2021-08-22 1 149 DE 00+ 149
2: 2021-08-04 2021-08-22 1 166 DE 00+ 166
3: 2021-08-05 2021-08-22 1 133 DE 00+ 133
4: 2021-08-06 2021-08-22 1 137 DE 00+ 137
5: 2021-08-07 2021-08-22 1 139 DE 00+ 139
6: 2021-08-08 2021-08-22 1 97 DE 00+ 97
7: 2021-08-09 2021-08-22 1 58 DE 00+ 58
8: 2021-08-10 2021-08-22 1 175 DE 00+ 175
9: 2021-08-11 2021-08-22 1 233 DE 00+ 233
10: 2021-08-12 2021-08-22 1 237 DE 00+ 237
11: 2021-08-13 2021-08-22 1 204 DE 00+ 204
12: 2021-08-14 2021-08-22 1 189 DE 00+ 189
13: 2021-08-15 2021-08-22 1 125 DE 00+ 125
14: 2021-08-16 2021-08-22 1 98 DE 00+ 98
15: 2021-08-17 2021-08-22 1 242 DE 00+ 242
16: 2021-08-18 2021-08-22 1 223 DE 00+ 223
17: 2021-08-19 2021-08-22 1 202 DE 00+ 202
18: 2021-08-20 2021-08-22 1 171 DE 00+ 171
19: 2021-08-21 2021-08-22 1 112 DE 00+ 112
20: 2021-08-22 2021-08-22 1 45 DE 00+ 45
cum_prop_reported delay prop_reported mean median sd mad q5 q50 q95
1: 1 19 0 149 149 0 0 149 149 149
2: 1 18 0 167 167 1 1 166 167 170
3: 1 17 0 136 136 2 1 133 136 139
4: 1 16 0 141 141 2 2 138 141 145
5: 1 15 0 146 146 3 3 141 146 151
6: 1 14 0 104 103 3 3 99 103 109
7: 1 13 0 63 62 2 1 59 62 67
8: 1 12 0 185 185 4 4 180 185 192
9: 1 11 0 256 255 6 6 246 255 267
10: 1 10 0 267 267 8 7 255 267 281
11: 1 9 0 236 236 8 9 223 236 252
12: 1 8 0 231 230 10 10 216 230 249
13: 1 7 0 165 165 10 10 150 165 183
14: 1 6 0 129 128 9 9 116 128 144
15: 1 5 0 293 292 12 12 275 292 313
16: 1 4 0 293 292 16 15 270 292 320
17: 1 3 0 291 290 19 19 263 290 325
18: 1 2 0 296 292 29 28 255 292 348
19: 1 1 0 309 304 51 47 237 304 406
20: 1 0 1 381 371 104 96 241 371 569
enw_nowcast_summary() can extract the summarised nowcast as expected when a delay smaller than specified was modelled
Code
round_numerics(nowcast[, c("rhat", "ess_bulk", "ess_tail") := NULL])
Output
reference_date report_date .group max_confirm location age_group confirm
1: 2021-08-01 2021-08-20 1 77 DE 00+ 77
2: 2021-08-02 2021-08-21 1 59 DE 00+ 59
3: 2021-08-03 2021-08-22 1 149 DE 00+ 149
4: 2021-08-04 2021-08-22 1 166 DE 00+ 166
5: 2021-08-05 2021-08-22 1 133 DE 00+ 133
6: 2021-08-06 2021-08-22 1 137 DE 00+ 137
7: 2021-08-07 2021-08-22 1 139 DE 00+ 139
8: 2021-08-08 2021-08-22 1 97 DE 00+ 97
9: 2021-08-09 2021-08-22 1 58 DE 00+ 58
10: 2021-08-10 2021-08-22 1 175 DE 00+ 175
11: 2021-08-11 2021-08-22 1 233 DE 00+ 233
12: 2021-08-12 2021-08-22 1 237 DE 00+ 237
13: 2021-08-13 2021-08-22 1 204 DE 00+ 204
14: 2021-08-14 2021-08-22 1 189 DE 00+ 189
15: 2021-08-15 2021-08-22 1 125 DE 00+ 125
16: 2021-08-16 2021-08-22 1 98 DE 00+ 98
17: 2021-08-17 2021-08-22 1 242 DE 00+ 242
18: 2021-08-18 2021-08-22 1 223 DE 00+ 223
19: 2021-08-19 2021-08-22 1 202 DE 00+ 202
20: 2021-08-20 2021-08-22 1 171 DE 00+ 171
21: 2021-08-21 2021-08-22 1 112 DE 00+ 112
22: 2021-08-22 2021-08-22 1 45 DE 00+ 45
reference_date report_date .group max_confirm location age_group confirm
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
1: 1 19 0 77 77 0 0 77 77 77 77
2: 1 19 0 59 59 0 0 59 59 59 59
3: 1 19 0 149 149 0 0 149 149 149 149
4: 1 18 0 167 167 1 1 166 166 167 167
5: 1 17 0 136 136 2 1 133 134 135 136
6: 1 16 0 141 141 2 2 138 139 140 141
7: 1 15 0 146 146 3 3 141 143 144 146
8: 1 14 0 104 103 3 3 99 101 102 103
9: 1 13 0 63 62 2 1 59 61 62 62
10: 1 12 0 185 185 4 4 180 182 183 185
11: 1 11 0 256 255 6 6 246 250 253 255
12: 1 10 0 267 267 8 7 255 261 264 267
13: 1 9 0 236 236 8 9 223 229 232 236
14: 1 8 0 231 230 10 10 216 222 226 230
15: 1 7 0 165 165 10 10 150 157 160 165
16: 1 6 0 129 128 9 9 116 122 126 128
17: 1 5 0 293 292 12 12 275 283 288 292
18: 1 4 0 293 292 16 15 270 280 286 292
19: 1 3 0 291 290 19 19 263 274 284 290
20: 1 2 0 296 292 29 28 255 271 282 292
21: 1 1 0 309 304 51 47 237 267 285 304
22: 1 0 1 381 371 104 96 241 294 332 371
cum_prop_reported delay prop_reported mean median sd mad q5 q20 q35 q50
q65 q80 q95
1: 77 77 77
2: 59 59 59
3: 149 149 149
4: 168 168 170
5: 136 137 139
6: 142 143 145
7: 147 148 151
8: 105 106 109
9: 63 65 67
10: 186 188 192
11: 258 261 267
12: 270 274 281
13: 239 243 252
14: 234 239 249
15: 168 173 183
16: 132 136 144
17: 297 303 313
18: 298 306 320
19: 298 306 325
20: 304 319 348
21: 323 349 406
22: 405 459 569
q65 q80 q95
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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