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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72601-72650 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I16_PLUS | HG002compoundhet | homalt | 8.5714 | 100.0000 | 4.4776 | 74.3295 | 3 | 0 | 3 | 64 | 64 | 100.0000 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | * | 98.6193 | 98.5028 | 98.7362 | 90.4249 | 5000 | 76 | 5000 | 64 | 18 | 28.1250 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3204 | 98.9679 | 99.6754 | 59.9358 | 19657 | 205 | 19650 | 64 | 45 | 70.3125 | |
| 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 | 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 | |
| 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 | |
| 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 | |
| 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 | |
| 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 | |
| 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 | |
| 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 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0389 | 96.6511 | 99.4672 | 62.4367 | 6205 | 215 | 11948 | 64 | 47 | 73.4375 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2451 | 95.3502 | 99.2167 | 55.7798 | 8018 | 391 | 8107 | 64 | 58 | 90.6250 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0389 | 96.6511 | 99.4672 | 62.4367 | 6205 | 215 | 11948 | 64 | 47 | 73.4375 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6239 | 99.8416 | 99.4072 | 41.3357 | 10715 | 17 | 10732 | 64 | 7 | 10.9375 | |
| ciseli-custom | SNP | ti | func_cds | homalt | 99.3195 | 99.8483 | 98.7963 | 20.7719 | 5267 | 8 | 5253 | 64 | 29 | 45.3125 | |
| ckim-gatk | SNP | ti | map_l250_m1_e0 | * | 69.7981 | 54.3568 | 97.4931 | 96.0316 | 2489 | 2090 | 2489 | 64 | 8 | 12.5000 | |
| ckim-gatk | SNP | ti | map_l250_m1_e0 | het | 72.9254 | 58.6253 | 96.4523 | 96.6462 | 1740 | 1228 | 1740 | 64 | 8 | 12.5000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8006 | 94.5372 | 95.0655 | 64.2896 | 1246 | 72 | 1233 | 64 | 61 | 95.3125 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 56.1021 | 47.7477 | 68.0000 | 49.7487 | 106 | 116 | 136 | 64 | 26 | 40.6250 | |
| gduggal-bwafb | SNP | tv | map_l250_m2_e1 | * | 97.4535 | 97.1193 | 97.7901 | 89.8390 | 2832 | 84 | 2832 | 64 | 14 | 21.8750 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002complexvar | homalt | 95.0189 | 90.9429 | 99.4774 | 52.2999 | 12230 | 1218 | 12183 | 64 | 50 | 78.1250 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 59.5931 | 46.9320 | 81.6092 | 83.6389 | 283 | 320 | 284 | 64 | 1 | 1.5625 | |
| gduggal-bwaplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2539 | 90.8867 | 97.8801 | 82.7110 | 2952 | 296 | 2955 | 64 | 9 | 14.0625 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 70.4260 | 57.0216 | 92.0694 | 94.2733 | 739 | 557 | 743 | 64 | 15 | 23.4375 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.9639 | 78.4943 | 97.4823 | 82.5580 | 2471 | 677 | 2478 | 64 | 33 | 51.5625 | |
| gduggal-bwaplat | SNP | tv | segdup | * | 98.5186 | 97.8083 | 99.2394 | 94.9737 | 8345 | 187 | 8350 | 64 | 11 | 17.1875 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.6612 | 97.3341 | 95.9975 | 47.6081 | 1643 | 45 | 1535 | 64 | 22 | 34.3750 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 94.6645 | 94.1361 | 95.1988 | 74.6771 | 899 | 56 | 1269 | 64 | 58 | 90.6250 | |
| eyeh-varpipe | INDEL | I6_15 | HG002compoundhet | hetalt | 42.7960 | 27.4218 | 97.4089 | 29.0841 | 2341 | 6196 | 2406 | 64 | 63 | 98.4375 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.9677 | 74.2205 | 94.0520 | 41.4581 | 976 | 339 | 1012 | 64 | 60 | 93.7500 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 81.0884 | 72.8543 | 91.4209 | 60.4663 | 730 | 272 | 682 | 64 | 49 | 76.5625 | |
| gduggal-bwafb | INDEL | I6_15 | HG002compoundhet | hetalt | 82.7582 | 72.8242 | 95.8306 | 40.7336 | 6217 | 2320 | 1471 | 64 | 63 | 98.4375 | |
| 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 | |