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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17451-17500 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.2725 | 91.6923 | 99.1437 | 39.7362 | 894 | 81 | 1042 | 9 | 9 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9122 | 68.7259 | 98.3516 | 52.7273 | 178 | 81 | 179 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 82.0120 | 84.6300 | 79.5511 | 62.0624 | 446 | 81 | 319 | 82 | 60 | 73.1707 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002complexvar | het | 98.1424 | 96.5605 | 99.7771 | 58.4090 | 2274 | 81 | 2238 | 5 | 4 | 80.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7592 | 96.2430 | 97.2808 | 87.7639 | 2075 | 81 | 2075 | 58 | 37 | 63.7931 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | het | 91.9297 | 98.8339 | 85.9271 | 86.1869 | 6865 | 81 | 6863 | 1124 | 59 | 5.2491 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | het | 92.1348 | 98.8831 | 86.2488 | 87.0469 | 7171 | 81 | 7169 | 1143 | 59 | 5.1619 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | het | 92.1722 | 98.8977 | 86.3032 | 87.0729 | 7267 | 81 | 7265 | 1153 | 60 | 5.2038 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.3310 | 91.5713 | 93.1034 | 71.6850 | 880 | 81 | 837 | 62 | 57 | 91.9355 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.7263 | 84.7170 | 100.0000 | 48.6813 | 449 | 81 | 467 | 0 | 0 | ||
| hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | * | 99.1145 | 98.9696 | 99.2598 | 79.4196 | 7780 | 81 | 7778 | 58 | 12 | 20.6897 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.1661 | 96.2430 | 98.1070 | 74.8751 | 2075 | 81 | 2073 | 40 | 13 | 32.5000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.7263 | 84.7170 | 100.0000 | 48.5116 | 449 | 81 | 467 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D16_PLUS | HG002complexvar | * | 96.9227 | 95.0700 | 98.8491 | 64.9955 | 1562 | 81 | 1546 | 18 | 11 | 61.1111 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7961 | 99.7741 | 97.8371 | 63.8462 | 35339 | 80 | 35328 | 781 | 32 | 4.0973 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | het | 92.9137 | 98.4304 | 87.9825 | 88.8885 | 5017 | 80 | 5015 | 685 | 60 | 8.7591 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.5844 | 94.0959 | 49.1648 | 73.3293 | 1275 | 80 | 1295 | 1339 | 1224 | 91.4115 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 90.8783 | 90.7300 | 91.0272 | 61.1646 | 783 | 80 | 771 | 76 | 71 | 93.4211 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 60.0572 | 82.6840 | 47.1535 | 44.1989 | 382 | 80 | 381 | 427 | 422 | 98.8290 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | * | 76.5753 | 70.9091 | 83.2258 | 83.8877 | 195 | 80 | 258 | 52 | 48 | 92.3077 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8252 | 97.9371 | 97.7135 | 64.8985 | 3798 | 80 | 3718 | 87 | 10 | 11.4943 | |
| gduggal-bwavard | SNP | * | map_siren | hetalt | 0.0000 | 1.2346 | 0.0000 | 0.0000 | 1 | 80 | 0 | 0 | 0 | ||
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3782 | 97.2964 | 95.4772 | 69.1463 | 2879 | 80 | 2871 | 136 | 12 | 8.8235 | |
| gduggal-bwavard | SNP | tv | map_siren | hetalt | 0.0000 | 1.2346 | 0.0000 | 0.0000 | 1 | 80 | 0 | 0 | 0 | ||
| gduggal-bwafb | SNP | ti | map_l150_m2_e0 | homalt | 99.3999 | 98.9496 | 99.8542 | 74.6089 | 7536 | 80 | 7536 | 11 | 6 | 54.5455 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.4506 | 95.0280 | 100.0000 | 56.4672 | 1529 | 80 | 1528 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.1952 | 95.9411 | 98.4824 | 66.8225 | 1891 | 80 | 1817 | 28 | 10 | 35.7143 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.1952 | 95.9411 | 98.4824 | 66.8225 | 1891 | 80 | 1817 | 28 | 10 | 35.7143 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 24.0700 | 40.7407 | 17.0807 | 46.4226 | 55 | 80 | 55 | 267 | 265 | 99.2509 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4180 | 99.2798 | 99.5566 | 63.6361 | 11028 | 80 | 11002 | 49 | 18 | 36.7347 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7868 | 99.6845 | 99.8894 | 55.8752 | 25279 | 80 | 25282 | 28 | 15 | 53.5714 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5149 | 99.3263 | 99.7043 | 51.4820 | 11795 | 80 | 11800 | 35 | 21 | 60.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.4819 | 91.2377 | 87.7925 | 91.7885 | 833 | 80 | 863 | 120 | 5 | 4.1667 | |
| 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 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 81.9603 | 79.1667 | 84.9582 | 78.0562 | 304 | 80 | 305 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.9656 | 92.6471 | 87.4350 | 59.5797 | 1008 | 80 | 1009 | 145 | 82 | 56.5517 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | homalt | 94.0659 | 94.8751 | 93.2704 | 61.1057 | 1481 | 80 | 1483 | 107 | 75 | 70.0935 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8184 | 94.7230 | 94.9141 | 71.6532 | 1436 | 80 | 1437 | 77 | 43 | 55.8442 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.7368 | 93.2088 | 96.3158 | 71.7892 | 1098 | 80 | 1098 | 42 | 35 | 83.3333 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.8914 | 94.3741 | 97.4582 | 84.3416 | 1342 | 80 | 1342 | 35 | 25 | 71.4286 | |
| ltrigg-rtg2 | INDEL | D1_5 | HG002complexvar | hetalt | 95.1803 | 94.0828 | 96.3038 | 77.4750 | 1272 | 80 | 1433 | 55 | 54 | 98.1818 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2208 | 95.9411 | 98.5350 | 66.0589 | 1891 | 80 | 1816 | 27 | 9 | 33.3333 | |
| bgallagher-sentieon | SNP | * | map_l150_m0_e0 | het | 98.2803 | 98.9924 | 97.5782 | 83.1442 | 7860 | 80 | 7857 | 195 | 22 | 11.2821 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.3282 | 91.7949 | 99.1445 | 40.6321 | 895 | 80 | 1043 | 9 | 9 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 96.4765 | 94.0254 | 99.0588 | 84.2359 | 1259 | 80 | 1263 | 12 | 4 | 33.3333 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1132 | 96.6216 | 99.6516 | 87.6280 | 2288 | 80 | 2288 | 8 | 8 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3498 | 98.7237 | 99.9839 | 45.5999 | 6188 | 80 | 6193 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | map_siren | homalt | 68.1692 | 93.3993 | 53.6710 | 71.9974 | 1132 | 80 | 1155 | 997 | 947 | 94.9850 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 59.8171 | 57.4468 | 62.3913 | 40.7216 | 108 | 80 | 287 | 173 | 145 | 83.8150 | |