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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12151-12200 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.3564 | 92.8046 | 98.0525 | 53.9032 | 1135 | 88 | 1158 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e0 | homalt | 99.7835 | 99.6512 | 99.9162 | 62.4810 | 27427 | 96 | 27427 | 23 | 21 | 91.3043 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | homalt | 99.7857 | 99.6546 | 99.9170 | 62.4746 | 27700 | 96 | 27700 | 23 | 21 | 91.3043 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m0_e0 | * | 57.0815 | 42.9032 | 85.2564 | 80.1020 | 133 | 177 | 133 | 23 | 21 | 91.3043 | |
| raldana-dualsentieon | INDEL | D1_5 | HG002complexvar | homalt | 99.8492 | 99.9151 | 99.7834 | 59.8813 | 10589 | 9 | 10594 | 23 | 21 | 91.3043 | |
| rpoplin-dv42 | SNP | tv | map_siren | homalt | 99.7328 | 99.5998 | 99.8662 | 55.9755 | 17171 | 69 | 17169 | 23 | 21 | 91.3043 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.1315 | 92.3957 | 98.0342 | 53.6450 | 1130 | 93 | 1147 | 23 | 21 | 91.3043 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5308 | 95.5496 | 99.5959 | 50.2969 | 5668 | 264 | 5668 | 23 | 21 | 91.3043 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.8359 | 92.4591 | 99.4688 | 63.5748 | 8595 | 701 | 8613 | 46 | 42 | 91.3043 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.9895 | 89.5064 | 98.9454 | 55.5533 | 2158 | 253 | 2158 | 23 | 21 | 91.3043 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002compoundhet | het | 87.8989 | 80.4977 | 96.7989 | 73.8775 | 1391 | 337 | 1391 | 46 | 42 | 91.3043 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1325 | 96.6975 | 99.6107 | 39.2966 | 17656 | 603 | 17657 | 69 | 63 | 91.3043 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5197 | 99.6701 | 99.3697 | 56.7552 | 3626 | 12 | 3626 | 23 | 21 | 91.3043 | |
| anovak-vg | SNP | ti | map_l125_m0_e0 | homalt | 86.0648 | 75.9296 | 99.3223 | 69.5933 | 3410 | 1081 | 3371 | 23 | 21 | 91.3043 | |
| ciseli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 0.6022 | 0.3733 | 1.5564 | 60.4311 | 8 | 2135 | 8 | 506 | 462 | 91.3043 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1191 | 96.5339 | 97.7114 | 58.6675 | 1866 | 67 | 1964 | 46 | 42 | 91.3043 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.0854 | 93.2480 | 96.9966 | 62.0553 | 3715 | 269 | 3714 | 115 | 105 | 91.3043 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.6157 | 97.9161 | 99.3253 | 64.1874 | 3383 | 72 | 3386 | 23 | 21 | 91.3043 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4072 | 95.3136 | 99.5949 | 50.5186 | 5654 | 278 | 5654 | 23 | 21 | 91.3043 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.6576 | 80.0000 | 94.5238 | 69.3431 | 392 | 98 | 397 | 23 | 21 | 91.3043 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002compoundhet | * | 97.5434 | 95.9362 | 99.2054 | 30.5780 | 8664 | 367 | 8615 | 69 | 63 | 91.3043 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 69.0093 | 82.0142 | 59.5643 | 43.2407 | 10269 | 2252 | 28735 | 19507 | 17809 | 91.2954 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 74.6510 | 71.8045 | 77.7324 | 73.3424 | 1528 | 600 | 1522 | 436 | 398 | 91.2844 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.4099 | 82.2078 | 93.3149 | 53.2942 | 3031 | 656 | 3043 | 218 | 199 | 91.2844 | |
| ckim-isaac | INDEL | I16_PLUS | HG002compoundhet | * | 61.2497 | 48.1568 | 84.1205 | 44.7593 | 1032 | 1111 | 1033 | 195 | 178 | 91.2821 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.8176 | 66.8723 | 79.9231 | 50.7780 | 1843 | 913 | 1871 | 470 | 429 | 91.2766 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 62.4312 | 62.4952 | 62.3673 | 38.8416 | 11411 | 6848 | 16160 | 9751 | 8900 | 91.2727 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.9484 | 89.1626 | 79.3103 | 79.1581 | 543 | 66 | 483 | 126 | 115 | 91.2698 | |
| mlin-fermikit | SNP | ti | map_l250_m2_e1 | homalt | 54.4040 | 43.3973 | 72.8910 | 76.6541 | 769 | 1003 | 769 | 286 | 261 | 91.2587 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | homalt | 99.9052 | 99.8382 | 99.9722 | 19.7176 | 288107 | 467 | 288052 | 80 | 73 | 91.2500 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7464 | 96.5472 | 98.9758 | 64.1922 | 13282 | 475 | 13239 | 137 | 125 | 91.2409 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7464 | 96.5472 | 98.9758 | 64.1922 | 13282 | 475 | 13239 | 137 | 125 | 91.2409 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 73.0196 | 90.4177 | 61.2365 | 38.8818 | 6039 | 640 | 15303 | 9687 | 8838 | 91.2357 | |
| ghariani-varprowl | INDEL | I6_15 | map_siren | het | 79.3596 | 91.6084 | 70.0000 | 86.6760 | 131 | 12 | 133 | 57 | 52 | 91.2281 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002complexvar | het | 94.8719 | 95.3930 | 94.3564 | 62.7718 | 1056 | 51 | 953 | 57 | 52 | 91.2281 | |
| bgallagher-sentieon | INDEL | D6_15 | * | * | 98.0100 | 97.7771 | 98.2439 | 54.8211 | 25512 | 580 | 25511 | 456 | 416 | 91.2281 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4377 | 98.0757 | 98.8024 | 44.1799 | 3211 | 63 | 9405 | 114 | 104 | 91.2281 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.1482 | 96.8620 | 93.4939 | 39.6090 | 10032 | 325 | 14902 | 1037 | 946 | 91.2247 | |
| rpoplin-dv42 | INDEL | * | * | homalt | 99.5190 | 99.2498 | 99.7896 | 55.3247 | 124233 | 939 | 124240 | 262 | 239 | 91.2214 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2133 | 99.5848 | 98.8446 | 73.6714 | 33098 | 138 | 33109 | 387 | 353 | 91.2145 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 91.0608 | 87.8273 | 94.5415 | 37.6092 | 12107 | 1678 | 12020 | 694 | 633 | 91.2104 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2848 | 99.4427 | 99.1274 | 50.6623 | 10349 | 58 | 10338 | 91 | 83 | 91.2088 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.0557 | 90.2945 | 95.9912 | 59.3990 | 2177 | 234 | 2179 | 91 | 83 | 91.2088 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.4140 | 30.7174 | 87.0736 | 43.4900 | 1460 | 3293 | 1455 | 216 | 197 | 91.2037 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5436 | 96.2382 | 98.8849 | 41.9802 | 21413 | 837 | 22170 | 250 | 228 | 91.2000 | |
| ckim-dragen | INDEL | D16_PLUS | HG002compoundhet | het | 93.6315 | 98.5185 | 89.2063 | 59.4595 | 399 | 6 | 281 | 34 | 31 | 91.1765 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.4588 | 63.4740 | 76.6895 | 52.7315 | 782 | 450 | 783 | 238 | 217 | 91.1765 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.8594 | 97.1731 | 80.1749 | 65.9384 | 275 | 8 | 275 | 68 | 62 | 91.1765 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.7513 | 99.9277 | 97.6023 | 62.0856 | 1382 | 1 | 1384 | 34 | 31 | 91.1765 | |
| eyeh-varpipe | INDEL | * | map_l125_m1_e0 | homalt | 97.0129 | 97.1311 | 96.8950 | 86.7449 | 711 | 21 | 1061 | 34 | 31 | 91.1765 | |