PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69101-69150 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1042 | 99.4409 | 98.7698 | 49.5614 | 10672 | 60 | 10678 | 133 | 13 | 9.7744 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.9066 | 98.3509 | 95.5042 | 77.2302 | 1491 | 25 | 1487 | 70 | 13 | 18.5714 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.9708 | 98.8342 | 97.1223 | 75.2765 | 3052 | 36 | 3105 | 92 | 13 | 14.1304 | |
| raldana-dualsentieon | INDEL | * | map_l100_m1_e0 | * | 97.9681 | 97.4066 | 98.5360 | 82.3019 | 3493 | 93 | 3500 | 52 | 13 | 25.0000 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e0 | * | 97.9722 | 97.4005 | 98.5507 | 83.3204 | 3597 | 96 | 3604 | 53 | 13 | 24.5283 | |
| raldana-dualsentieon | INDEL | * | map_l100_m2_e1 | * | 97.9928 | 97.4175 | 98.5749 | 83.4180 | 3659 | 97 | 3666 | 53 | 13 | 24.5283 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.2767 | 87.0680 | 98.1481 | 43.3170 | 781 | 116 | 795 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6651 | 96.2419 | 97.0920 | 67.8312 | 1639 | 64 | 1636 | 49 | 13 | 26.5306 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | homalt | 99.7333 | 99.5504 | 99.9169 | 65.2026 | 16829 | 76 | 16829 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | homalt | 99.7405 | 99.5626 | 99.9191 | 67.9668 | 17299 | 76 | 17299 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.7429 | 99.5665 | 99.9199 | 68.0072 | 17456 | 76 | 17456 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | homalt | 99.7965 | 99.6659 | 99.9274 | 59.1233 | 17900 | 60 | 17900 | 13 | 13 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.7880 | 96.3753 | 97.2043 | 81.1588 | 452 | 17 | 452 | 13 | 13 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8068 | 96.9376 | 98.6918 | 81.5857 | 2564 | 81 | 2565 | 34 | 13 | 38.2353 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4376 | 99.3474 | 99.5280 | 38.8679 | 2740 | 18 | 2741 | 13 | 13 | 100.0000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m0_e0 | het | 98.6590 | 97.7984 | 99.5349 | 67.9349 | 7063 | 159 | 7063 | 33 | 13 | 39.3939 | |
| ndellapenna-hhga | SNP | tv | map_l125_m0_e0 | * | 98.6916 | 97.8284 | 99.5702 | 72.2163 | 6487 | 144 | 6487 | 28 | 13 | 46.4286 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | het | 98.5385 | 97.5525 | 99.5446 | 72.4747 | 6776 | 170 | 6776 | 31 | 13 | 41.9355 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e0 | het | 98.5727 | 97.6145 | 99.5500 | 73.8403 | 7079 | 173 | 7079 | 32 | 13 | 40.6250 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e1 | het | 98.5776 | 97.6184 | 99.5559 | 73.8732 | 7173 | 175 | 7173 | 32 | 13 | 40.6250 | |
| qzeng-custom | INDEL | * | HG002complexvar | hetalt | 90.0705 | 82.9143 | 98.5786 | 66.1860 | 3067 | 632 | 1179 | 17 | 13 | 76.4706 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 90.5470 | 96.0437 | 85.6454 | 67.9552 | 704 | 29 | 710 | 119 | 13 | 10.9244 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | homalt | 85.1872 | 78.2396 | 93.4890 | 80.8459 | 960 | 267 | 1321 | 92 | 13 | 14.1304 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 57.8169 | 95.5224 | 41.4538 | 69.3558 | 192 | 9 | 211 | 298 | 13 | 4.3624 | |
| qzeng-custom | INDEL | D16_PLUS | map_siren | * | 50.9653 | 84.6154 | 36.4641 | 88.9936 | 121 | 22 | 132 | 230 | 13 | 5.6522 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.8040 | 97.3134 | 96.2999 | 62.2704 | 978 | 27 | 989 | 38 | 13 | 34.2105 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 77.7525 | 64.8746 | 97.0093 | 45.7404 | 181 | 98 | 519 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3975 | 98.7234 | 98.0737 | 43.5889 | 464 | 6 | 1782 | 35 | 13 | 37.1429 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m1_e0 | het | 80.8356 | 71.8147 | 92.4485 | 89.2761 | 558 | 219 | 808 | 66 | 13 | 19.6970 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 80.9908 | 72.0050 | 92.5390 | 89.7242 | 571 | 222 | 831 | 67 | 13 | 19.4030 | |
| qzeng-custom | INDEL | I1_5 | map_l100_m2_e1 | het | 81.0781 | 72.2222 | 92.4092 | 89.7647 | 585 | 225 | 840 | 69 | 13 | 18.8406 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 62.8983 | 80.9524 | 51.4286 | 99.9273 | 17 | 4 | 18 | 17 | 13 | 76.4706 | |
| anovak-vg | INDEL | D16_PLUS | map_siren | het | 65.2174 | 57.6923 | 75.0000 | 77.5439 | 45 | 33 | 48 | 16 | 13 | 81.2500 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e0 | homalt | 87.6855 | 81.0440 | 95.5128 | 86.5285 | 295 | 69 | 298 | 14 | 13 | 92.8571 | |
| anovak-vg | INDEL | D1_5 | map_l125_m2_e1 | homalt | 87.8083 | 81.1828 | 95.6113 | 86.4773 | 302 | 70 | 305 | 14 | 13 | 92.8571 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.9811 | 99.2278 | 94.8339 | 60.4956 | 257 | 2 | 257 | 14 | 13 | 92.8571 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.5524 | 94.0012 | 99.2459 | 33.5901 | 1520 | 97 | 1711 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5247 | 93.9357 | 99.2605 | 36.0262 | 1549 | 100 | 1745 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3750 | 99.1863 | 99.5644 | 51.3896 | 3657 | 30 | 3657 | 16 | 13 | 81.2500 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2511 | 98.5968 | 99.9141 | 62.3697 | 34922 | 497 | 34912 | 30 | 13 | 43.3333 | |
| astatham-gatk | SNP | * | map_l150_m1_e0 | homalt | 99.3312 | 98.8113 | 99.8566 | 68.4753 | 11139 | 134 | 11139 | 16 | 13 | 81.2500 | |
| astatham-gatk | SNP | * | map_l150_m2_e0 | homalt | 99.3470 | 98.8375 | 99.8618 | 70.8404 | 11563 | 136 | 11563 | 16 | 13 | 81.2500 | |
| astatham-gatk | SNP | * | map_l150_m2_e1 | homalt | 99.3541 | 98.8501 | 99.8633 | 70.8527 | 11691 | 136 | 11691 | 16 | 13 | 81.2500 | |
| astatham-gatk | SNP | ti | map_l100_m1_e0 | homalt | 99.6258 | 99.3318 | 99.9216 | 57.0466 | 17840 | 120 | 17840 | 14 | 13 | 92.8571 | |
| astatham-gatk | SNP | ti | map_l100_m2_e0 | homalt | 99.6302 | 99.3391 | 99.9231 | 59.5727 | 18188 | 121 | 18188 | 14 | 13 | 92.8571 | |
| astatham-gatk | SNP | ti | map_l100_m2_e1 | homalt | 99.6312 | 99.3403 | 99.9239 | 59.5512 | 18372 | 122 | 18372 | 14 | 13 | 92.8571 | |