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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13401-13450 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | tv | map_l100_m1_e0 | het | 99.5262 | 99.4681 | 99.5843 | 65.6944 | 15335 | 82 | 15331 | 64 | 5 | 7.8125 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e0 | * | 99.3876 | 99.3395 | 99.4357 | 75.5855 | 11280 | 75 | 11278 | 64 | 9 | 14.0625 | |
| hfeng-pmm3 | SNP | tv | map_l150_m2_e1 | * | 99.3954 | 99.3479 | 99.4429 | 75.5927 | 11427 | 75 | 11425 | 64 | 9 | 14.0625 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.9102 | 92.5212 | 99.5569 | 59.5559 | 14264 | 1153 | 14381 | 64 | 58 | 90.6250 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.1621 | 97.7230 | 87.2000 | 81.7983 | 515 | 12 | 436 | 64 | 51 | 79.6875 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9066 | 93.0451 | 96.8442 | 70.4071 | 1980 | 148 | 1964 | 64 | 54 | 84.3750 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6034 | 94.8872 | 94.3212 | 81.3996 | 1262 | 68 | 1063 | 64 | 51 | 79.6875 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8307 | 96.4864 | 99.2129 | 59.5573 | 8101 | 295 | 8067 | 64 | 55 | 85.9375 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | het | 89.4149 | 87.4118 | 91.5119 | 86.7066 | 743 | 107 | 690 | 64 | 62 | 96.8750 | |
| hfeng-pmm2 | SNP | tv | HG002complexvar | * | 99.8387 | 99.7038 | 99.9739 | 21.6976 | 245423 | 729 | 245339 | 64 | 21 | 32.8125 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.5421 | 99.7007 | 99.3840 | 44.2028 | 10326 | 31 | 10326 | 64 | 61 | 95.3125 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0927 | 93.1226 | 97.1480 | 33.6879 | 2180 | 161 | 2180 | 64 | 63 | 98.4375 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9883 | 95.6391 | 94.3463 | 80.9074 | 1272 | 58 | 1068 | 64 | 58 | 90.6250 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9618 | 99.7173 | 98.2178 | 72.3769 | 3527 | 10 | 3527 | 64 | 63 | 98.4375 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.6706 | 100.0000 | 82.9333 | 68.7239 | 311 | 0 | 311 | 64 | 63 | 98.4375 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | het | 97.2839 | 97.4049 | 97.1631 | 83.0935 | 2177 | 58 | 2192 | 64 | 26 | 40.6250 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6532 | 98.4263 | 98.8811 | 62.2592 | 5754 | 92 | 5656 | 64 | 24 | 37.5000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6532 | 98.4263 | 98.8811 | 62.2592 | 5754 | 92 | 5656 | 64 | 24 | 37.5000 | |
| ltrigg-rtg2 | SNP | * | map_l125_m1_e0 | * | 98.9740 | 98.1071 | 99.8563 | 58.5564 | 44469 | 858 | 44470 | 64 | 15 | 23.4375 | |
| ltrigg-rtg2 | SNP | * | map_l125_m2_e0 | het | 98.5358 | 97.3259 | 99.7762 | 57.8912 | 28534 | 784 | 28535 | 64 | 6 | 9.3750 | |
| qzeng-custom | INDEL | * | map_l150_m2_e0 | het | 81.2179 | 72.2958 | 92.6521 | 95.0610 | 655 | 251 | 807 | 64 | 30 | 46.8750 | |
| qzeng-custom | INDEL | C16_PLUS | HG002complexvar | * | 0.0000 | 0.0000 | 13.5135 | 79.8913 | 0 | 0 | 10 | 64 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m2_e0 | homalt | 70.6131 | 69.0083 | 72.2944 | 81.5052 | 167 | 75 | 167 | 64 | 59 | 92.1875 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.2465 | 93.1191 | 97.4734 | 81.1308 | 2463 | 182 | 2469 | 64 | 5 | 7.8125 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 62.9442 | 87.3239 | 49.2063 | 47.2803 | 62 | 9 | 62 | 64 | 64 | 100.0000 | |
| qzeng-custom | SNP | * | map_l150_m1_e0 | homalt | 80.0720 | 67.1516 | 99.1488 | 70.4941 | 7570 | 3703 | 7455 | 64 | 64 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.5900 | 99.3241 | 97.8667 | 64.6435 | 2939 | 20 | 2936 | 64 | 4 | 6.2500 | |
| raldana-dualsentieon | INDEL | * | map_siren | * | 98.6998 | 98.2726 | 99.1307 | 80.1633 | 7282 | 128 | 7298 | 64 | 16 | 25.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.3623 | 99.9488 | 96.8254 | 41.7173 | 1952 | 1 | 1952 | 64 | 62 | 96.8750 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.5065 | 98.1366 | 71.1712 | 37.2881 | 158 | 3 | 158 | 64 | 64 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | homalt | 8.5714 | 100.0000 | 4.4776 | 73.9300 | 3 | 0 | 3 | 64 | 63 | 98.4375 | |
| jmaeng-gatk | INDEL | I1_5 | HG002complexvar | * | 99.3649 | 98.9270 | 99.8067 | 56.9963 | 33005 | 358 | 33051 | 64 | 46 | 71.8750 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | hetalt | 91.1572 | 85.1041 | 98.1374 | 66.7119 | 3148 | 551 | 3372 | 64 | 64 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l125_m0_e0 | * | 95.4196 | 97.8458 | 93.1109 | 92.8522 | 863 | 19 | 865 | 64 | 6 | 9.3750 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 71.1111 | 76.1905 | 66.6667 | 71.4710 | 128 | 40 | 128 | 64 | 63 | 98.4375 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 65.9144 | 1406 | 480 | 1401 | 64 | 57 | 89.0625 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3027 | 98.3993 | 98.2063 | 71.9673 | 3504 | 57 | 3504 | 64 | 44 | 68.7500 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.7606 | 94.4613 | 95.0617 | 64.4054 | 1245 | 73 | 1232 | 64 | 61 | 95.3125 | |
| astatham-gatk | SNP | ti | map_l100_m2_e1 | * | 92.0971 | 85.4623 | 99.8489 | 69.7778 | 42291 | 7194 | 42284 | 64 | 36 | 56.2500 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | * | 90.1581 | 85.7955 | 94.9883 | 97.8029 | 1208 | 200 | 1213 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | * | 90.1401 | 85.6845 | 95.0845 | 97.7994 | 1233 | 206 | 1238 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | INDEL | D1_5 | map_siren | * | 94.8669 | 91.8674 | 98.0688 | 84.1980 | 3242 | 287 | 3250 | 64 | 8 | 12.5000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.5568 | 97.9679 | 99.1528 | 76.0152 | 5978 | 124 | 7490 | 64 | 52 | 81.2500 | |
| anovak-vg | INDEL | D1_5 | map_l150_m0_e0 | * | 78.5978 | 78.8927 | 78.3051 | 93.2168 | 228 | 61 | 231 | 64 | 29 | 45.3125 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.4894 | 84.3750 | 88.7125 | 60.9235 | 486 | 90 | 503 | 64 | 41 | 64.0625 | |
| anovak-vg | INDEL | I1_5 | segdup | het | 40.6839 | 28.2528 | 72.6496 | 97.2794 | 152 | 386 | 170 | 64 | 21 | 32.8125 | |
| astatham-gatk | INDEL | * | HG002complexvar | hetalt | 96.3890 | 94.5391 | 98.3127 | 68.6296 | 3497 | 202 | 3729 | 64 | 63 | 98.4375 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.7788 | 88.1157 | 97.9631 | 52.0232 | 3077 | 415 | 3078 | 64 | 61 | 95.3125 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |