PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19101-19150 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 83.5759 | 89.6241 | 78.2925 | 40.0872 | 1192 | 138 | 1183 | 328 | 283 | 86.2805 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1924 | 95.1464 | 99.3283 | 34.1625 | 1137 | 58 | 1183 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l100_m1_e0 | het | 96.9291 | 98.0149 | 95.8671 | 85.7209 | 1185 | 24 | 1183 | 51 | 4 | 7.8431 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| anovak-vg | INDEL | * | map_l100_m0_e0 | * | 72.6539 | 73.0006 | 72.3105 | 87.1262 | 1141 | 422 | 1183 | 453 | 264 | 58.2781 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1522 | 95.1464 | 99.2443 | 33.7229 | 1137 | 58 | 1182 | 9 | 8 | 88.8889 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | hetalt | 96.5751 | 93.3769 | 100.0000 | 55.8131 | 1142 | 81 | 1182 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | HG002complexvar | * | 75.6960 | 71.3329 | 80.6276 | 65.0203 | 1172 | 471 | 1182 | 284 | 273 | 96.1268 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m1_e0 | het | 97.7235 | 97.6013 | 97.8459 | 81.5387 | 1180 | 29 | 1181 | 26 | 9 | 34.6154 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.2679 | 97.6311 | 83.9375 | 60.3774 | 1154 | 28 | 1181 | 226 | 172 | 76.1062 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e0 | homalt | 96.2820 | 93.4179 | 99.3272 | 85.6349 | 1178 | 83 | 1181 | 8 | 3 | 37.5000 | |
| anovak-vg | SNP | ti | map_l250_m1_e0 | homalt | 84.7951 | 73.9266 | 99.4103 | 87.1481 | 1188 | 419 | 1180 | 7 | 5 | 71.4286 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | homalt | 96.2063 | 97.0346 | 95.3921 | 53.5137 | 1178 | 36 | 1180 | 57 | 43 | 75.4386 | |
| mlin-fermikit | SNP | ti | map_l150_m0_e0 | homalt | 53.2251 | 42.7381 | 70.5320 | 59.3142 | 1180 | 1581 | 1180 | 493 | 459 | 93.1034 | |
| mlin-fermikit | SNP | * | map_l250_m2_e1 | homalt | 53.1320 | 43.3775 | 68.5465 | 76.1343 | 1179 | 1539 | 1179 | 541 | 500 | 92.4214 | |
| qzeng-custom | INDEL | * | HG002complexvar | hetalt | 90.0705 | 82.9143 | 98.5786 | 66.1860 | 3067 | 632 | 1179 | 17 | 13 | 76.4706 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.1375 | 85.3261 | 72.0660 | 79.7424 | 942 | 162 | 1179 | 457 | 238 | 52.0788 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6820 | 95.7792 | 99.6619 | 56.9975 | 1180 | 52 | 1179 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 87.9523 | 78.9685 | 99.2424 | 47.1530 | 1179 | 314 | 1179 | 9 | 9 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | HG002complexvar | hetalt | 96.4437 | 93.1316 | 100.0000 | 55.3409 | 1139 | 84 | 1179 | 0 | 0 | ||
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.6651 | 85.4732 | 81.9319 | 70.4517 | 1165 | 198 | 1179 | 260 | 119 | 45.7692 | |
| jli-custom | INDEL | I6_15 | HG002complexvar | hetalt | 96.4875 | 93.2134 | 100.0000 | 52.5574 | 1140 | 83 | 1178 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | homalt | 96.3193 | 96.9522 | 95.6946 | 54.2209 | 1177 | 37 | 1178 | 53 | 36 | 67.9245 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.7599 | 90.0688 | 95.6169 | 66.4762 | 1179 | 130 | 1178 | 54 | 28 | 51.8519 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 74.7354 | 78.9833 | 70.9211 | 58.2978 | 1041 | 277 | 1178 | 483 | 222 | 45.9627 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.3240 | 95.7792 | 96.8750 | 60.5835 | 1180 | 52 | 1178 | 38 | 26 | 68.4211 | |
| jpowers-varprowl | INDEL | * | map_l100_m2_e1 | homalt | 95.2265 | 91.8813 | 98.8245 | 79.7621 | 1177 | 104 | 1177 | 14 | 9 | 64.2857 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0283 | 97.4260 | 96.6338 | 80.2465 | 757 | 20 | 1177 | 41 | 27 | 65.8537 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0410 | 89.1557 | 99.4928 | 31.2609 | 1151 | 140 | 1177 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m1_e0 | het | 98.0780 | 97.0223 | 99.1568 | 79.7611 | 1173 | 36 | 1176 | 10 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 87.0859 | 79.3103 | 96.5517 | 52.0850 | 483 | 126 | 1176 | 42 | 40 | 95.2381 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m1_e0 | het | 92.3518 | 98.9247 | 86.5979 | 88.3812 | 1196 | 13 | 1176 | 182 | 48 | 26.3736 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 70.2185 | 89.1892 | 57.9025 | 52.1104 | 1188 | 144 | 1176 | 855 | 827 | 96.7251 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 48.9137 | 52.6535 | 45.6699 | 40.6819 | 506 | 455 | 1176 | 1399 | 1152 | 82.3445 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e1 | homalt | 94.7241 | 91.8033 | 97.8369 | 80.2368 | 1176 | 105 | 1176 | 26 | 9 | 34.6154 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m1_e0 | het | 95.6711 | 96.4433 | 94.9111 | 81.1539 | 1166 | 43 | 1175 | 63 | 7 | 11.1111 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.0360 | 92.8854 | 99.4078 | 87.3434 | 1175 | 90 | 1175 | 7 | 6 | 85.7143 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4314 | 95.4545 | 99.4920 | 57.5943 | 1176 | 56 | 1175 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1641 | 94.5607 | 99.9149 | 34.2105 | 1130 | 65 | 1174 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7955 | 94.3933 | 99.3232 | 30.5115 | 1128 | 67 | 1174 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.0268 | 75.3467 | 58.7588 | 41.5789 | 489 | 160 | 1174 | 824 | 725 | 87.9854 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7955 | 94.3933 | 99.3232 | 30.5115 | 1128 | 67 | 1174 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1070 | 95.3734 | 98.9048 | 56.9460 | 1175 | 57 | 1174 | 13 | 12 | 92.3077 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2459 | 94.4805 | 98.0785 | 59.8187 | 1164 | 68 | 1174 | 23 | 10 | 43.4783 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.5301 | 93.6306 | 97.5083 | 72.4674 | 1176 | 80 | 1174 | 30 | 1 | 3.3333 | |
| asubramanian-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 91.2346 | 85.1608 | 98.2412 | 87.9589 | 1165 | 203 | 1173 | 21 | 4 | 19.0476 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.4868 | 99.3209 | 97.6667 | 72.1900 | 1170 | 8 | 1172 | 28 | 28 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.4777 | 92.0158 | 88.9901 | 86.8129 | 1164 | 101 | 1172 | 145 | 90 | 62.0690 | |