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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20851-20900 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | segdup | * | 98.8035 | 98.0652 | 99.5531 | 93.1259 | 19159 | 378 | 19157 | 86 | 7 | 8.1395 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.0685 | 99.0142 | 99.1228 | 89.4371 | 904 | 9 | 904 | 8 | 7 | 87.5000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2430 | 99.1304 | 99.3558 | 84.2935 | 2622 | 23 | 2622 | 17 | 7 | 41.1765 | |
| ckim-vqsr | SNP | tv | map_siren | * | 82.2625 | 70.1676 | 99.3954 | 75.7194 | 32228 | 13702 | 32221 | 196 | 7 | 3.5714 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7255 | 97.6911 | 97.7600 | 78.8994 | 1227 | 29 | 1222 | 28 | 7 | 25.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | * | 97.9875 | 97.9847 | 97.9903 | 91.3313 | 1410 | 29 | 1414 | 29 | 7 | 24.1379 | |
| dgrover-gatk | INDEL | * | map_siren | het | 98.8042 | 98.8909 | 98.7177 | 84.1153 | 4458 | 50 | 4465 | 58 | 7 | 12.0690 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9833 | 96.5224 | 99.4891 | 37.1848 | 1249 | 45 | 1363 | 7 | 7 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5702 | 98.7805 | 92.5620 | 88.2296 | 162 | 2 | 112 | 9 | 7 | 77.7778 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8920 | 97.5066 | 98.2804 | 67.0301 | 743 | 19 | 743 | 13 | 7 | 53.8462 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6284 | 97.4026 | 97.8552 | 79.4942 | 375 | 10 | 365 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8131 | 99.6954 | 99.9311 | 54.3062 | 10147 | 31 | 10148 | 7 | 7 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 92.8980 | 89.5022 | 96.5618 | 87.1490 | 1654 | 194 | 1657 | 59 | 7 | 11.8644 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 93.0444 | 89.7128 | 96.6330 | 87.5446 | 1718 | 197 | 1722 | 60 | 7 | 11.6667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 93.0516 | 89.7370 | 96.6205 | 87.5894 | 1740 | 199 | 1744 | 61 | 7 | 11.4754 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3450 | 94.8485 | 95.8466 | 76.3952 | 313 | 17 | 300 | 13 | 7 | 53.8462 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | * | 93.2137 | 88.1864 | 98.8489 | 83.6431 | 2650 | 355 | 2662 | 31 | 7 | 22.5806 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 96.0912 | 93.1316 | 99.2450 | 56.3849 | 1139 | 84 | 1183 | 9 | 7 | 77.7778 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.5411 | 97.9111 | 97.1738 | 70.8692 | 2953 | 63 | 2957 | 86 | 7 | 8.1395 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7738 | 97.6852 | 97.8626 | 87.3723 | 1266 | 30 | 1282 | 28 | 7 | 25.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1239 | 97.7673 | 98.4831 | 88.4750 | 832 | 19 | 844 | 13 | 7 | 53.8462 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.4359 | 96.5079 | 98.3819 | 65.6476 | 608 | 22 | 608 | 10 | 7 | 70.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3833 | 100.0000 | 98.7741 | 72.8095 | 564 | 0 | 564 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.2727 | 100.0000 | 77.4194 | 79.1946 | 24 | 0 | 24 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | * | map_l250_m0_e0 | het | 97.2742 | 98.3400 | 96.2313 | 93.6672 | 1481 | 25 | 1481 | 58 | 7 | 12.0690 | |
| bgallagher-sentieon | SNP | * | map_l250_m1_e0 | homalt | 99.2870 | 98.9444 | 99.6321 | 85.1090 | 2437 | 26 | 2437 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e0 | homalt | 99.3276 | 98.9948 | 99.6627 | 86.1668 | 2659 | 27 | 2659 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | homalt | 99.3355 | 99.0066 | 99.6667 | 86.2231 | 2691 | 27 | 2691 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | homalt | 99.6648 | 99.4469 | 99.8837 | 59.2653 | 7731 | 43 | 7731 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.5087 | 99.8767 | 68.0791 | 7291 | 36 | 7291 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6909 | 99.5011 | 99.8814 | 70.4694 | 7578 | 38 | 7578 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | homalt | 99.6940 | 99.5060 | 99.8826 | 70.5038 | 7655 | 38 | 7655 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | SNP | ti | map_l250_m0_e0 | * | 98.1132 | 98.6861 | 97.5469 | 93.1376 | 1352 | 18 | 1352 | 34 | 7 | 20.5882 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3312 | 99.2264 | 99.4362 | 88.4220 | 1411 | 11 | 1411 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.4691 | 99.4211 | 99.5171 | 82.2582 | 4122 | 24 | 4122 | 20 | 7 | 35.0000 | |
| bgallagher-sentieon | SNP | tv | map_l150_m0_e0 | het | 97.9977 | 99.0151 | 97.0010 | 83.2079 | 2815 | 28 | 2814 | 87 | 7 | 8.0460 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3884 | 99.2047 | 99.5729 | 68.2811 | 1871 | 15 | 1865 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9433 | 96.4451 | 99.4887 | 36.9705 | 1248 | 46 | 1362 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8892 | 97.3753 | 98.4085 | 66.7402 | 742 | 20 | 742 | 12 | 7 | 58.3333 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.8944 | 97.9221 | 97.8667 | 79.3046 | 377 | 8 | 367 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.2266 | 98.4848 | 96.0000 | 75.7282 | 325 | 5 | 312 | 13 | 7 | 53.8462 | |
| astatham-gatk | INDEL | I16_PLUS | HG002complexvar | homalt | 98.8800 | 100.0000 | 97.7848 | 70.6592 | 309 | 0 | 309 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 85.1501 | 95.7447 | 76.6667 | 93.7759 | 45 | 2 | 23 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.7925 | 100.0000 | 76.6667 | 88.7640 | 23 | 0 | 23 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.5736 | 100.0000 | 89.7059 | 91.5106 | 61 | 0 | 61 | 7 | 7 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3176 | 99.3243 | 99.3109 | 72.4414 | 1323 | 9 | 1297 | 9 | 7 | 77.7778 | |