PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61001-61050 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | tv | map_l125_m2_e0 | homalt | 99.4410 | 99.0361 | 99.8492 | 66.8223 | 5959 | 58 | 5959 | 9 | 6 | 66.6667 | |
| astatham-gatk | SNP | tv | map_l125_m2_e1 | homalt | 99.4462 | 99.0451 | 99.8506 | 66.8391 | 6016 | 58 | 6016 | 9 | 6 | 66.6667 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 87.6190 | 92.0000 | 83.6364 | 85.0949 | 46 | 4 | 46 | 9 | 2 | 22.2222 | |
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 70.9677 | 0 | 0 | 0 | 9 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 82.0000 | 0 | 0 | 0 | 9 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | map_siren | * | 0.0000 | 0.0000 | 93.7931 | 0 | 0 | 0 | 9 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 0.0000 | 0.0000 | 91.2621 | 0 | 0 | 0 | 9 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.7479 | 96.0199 | 95.4774 | 88.9136 | 193 | 8 | 190 | 9 | 2 | 22.2222 | |
| anovak-vg | INDEL | I16_PLUS | segdup | * | 48.3031 | 38.2979 | 65.3846 | 88.6463 | 18 | 29 | 17 | 9 | 5 | 55.5556 | |
| anovak-vg | INDEL | I16_PLUS | segdup | homalt | 60.0000 | 63.1579 | 57.1429 | 87.7907 | 12 | 7 | 12 | 9 | 5 | 55.5556 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 59.2384 | 57.6923 | 60.8696 | 95.4092 | 15 | 11 | 14 | 9 | 5 | 55.5556 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | homalt | 82.5658 | 70.7831 | 99.0546 | 79.9368 | 940 | 388 | 943 | 9 | 7 | 77.7778 | |
| astatham-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.7292 | 99.2141 | 98.2490 | 85.0971 | 505 | 4 | 505 | 9 | 5 | 55.5556 | |
| astatham-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.6623 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4057 | 99.7831 | 99.0312 | 77.4842 | 920 | 2 | 920 | 9 | 6 | 66.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.9839 | 85.7475 | 99.1986 | 31.0197 | 1107 | 184 | 1114 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9249 | 97.7178 | 98.1328 | 87.6884 | 471 | 11 | 473 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e0 | het | 98.0541 | 97.8599 | 98.2490 | 88.2809 | 503 | 11 | 505 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e1 | het | 97.9860 | 97.7011 | 98.2726 | 88.3079 | 510 | 12 | 512 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | INDEL | D1_5 | map_siren | homalt | 99.4879 | 99.7432 | 99.2340 | 80.1520 | 1165 | 3 | 1166 | 9 | 7 | 77.7778 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.8405 | 98.7254 | 98.9559 | 62.6030 | 852 | 11 | 853 | 9 | 8 | 88.8889 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.6408 | 85.0117 | 99.3911 | 29.8196 | 1452 | 256 | 1469 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.0787 | 99.4310 | 98.7288 | 45.5803 | 699 | 4 | 699 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.4611 | 78.1955 | 91.8182 | 83.7278 | 104 | 29 | 101 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 90.0000 | 85.9551 | 94.4444 | 70.7581 | 153 | 25 | 153 | 9 | 8 | 88.8889 | |
| rpoplin-dv42 | SNP | ti | func_cds | * | 99.9420 | 99.9492 | 99.9347 | 23.0636 | 13780 | 7 | 13778 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | SNP | ti | func_cds | het | 99.9236 | 99.9530 | 99.8942 | 23.9564 | 8500 | 4 | 8498 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | SNP | ti | map_l250_m2_e1 | homalt | 98.9217 | 98.3634 | 99.4863 | 87.6793 | 1743 | 29 | 1743 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7694 | 99.7050 | 99.8338 | 75.7174 | 5407 | 16 | 5407 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1242 | 99.2333 | 99.0153 | 88.2398 | 906 | 7 | 905 | 9 | 6 | 66.6667 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.0223 | 95.7317 | 92.3729 | 85.3598 | 157 | 7 | 109 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m1_e0 | het | 86.4024 | 91.3043 | 82.0000 | 93.3066 | 42 | 4 | 41 | 9 | 4 | 44.4444 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m2_e0 | het | 86.7606 | 91.6667 | 82.3529 | 94.1913 | 44 | 4 | 42 | 9 | 4 | 44.4444 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m2_e1 | het | 87.5233 | 92.1569 | 83.3333 | 94.0199 | 47 | 4 | 45 | 9 | 4 | 44.4444 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.0404 | 92.7273 | 97.4719 | 75.5662 | 357 | 28 | 347 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m0_e0 | * | 97.7751 | 97.3790 | 98.1744 | 86.5042 | 483 | 13 | 484 | 9 | 2 | 22.2222 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 97.7099 | 100.0000 | 95.5224 | 44.4751 | 192 | 0 | 192 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m0_e0 | het | 97.4050 | 97.5460 | 97.2644 | 82.8646 | 318 | 8 | 320 | 9 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l125_m0_e0 | het | 95.8669 | 96.3542 | 95.3846 | 86.8243 | 185 | 7 | 186 | 9 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.0635 | 98.3051 | 86.5672 | 75.1852 | 58 | 1 | 58 | 9 | 9 | 100.0000 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2865 | 96.1857 | 98.4127 | 70.2674 | 580 | 23 | 558 | 9 | 5 | 55.5556 | |
| raldana-dualsentieon | SNP | * | HG002compoundhet | homalt | 99.8887 | 99.8609 | 99.9165 | 34.8192 | 10767 | 15 | 10768 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8260 | 99.7054 | 99.9469 | 65.8244 | 16925 | 50 | 16925 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8260 | 99.7054 | 99.9469 | 65.8244 | 16925 | 50 | 16925 | 9 | 8 | 88.8889 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8251 | 99.7031 | 99.9475 | 55.2981 | 17126 | 51 | 17123 | 9 | 6 | 66.6667 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7694 | 99.7050 | 99.8338 | 75.7174 | 5407 | 16 | 5407 | 9 | 2 | 22.2222 | |
| rpoplin-dv42 | SNP | tv | map_l150_m1_e0 | homalt | 99.2485 | 98.7329 | 99.7695 | 71.6659 | 3896 | 50 | 3896 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e0 | homalt | 99.2738 | 98.7754 | 99.7773 | 74.0315 | 4033 | 50 | 4033 | 9 | 9 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e1 | homalt | 99.2828 | 98.7905 | 99.7801 | 74.0325 | 4084 | 50 | 4084 | 9 | 9 | 100.0000 | |
| raldana-dualsentieon | SNP | * | segdup | homalt | 99.9022 | 99.8883 | 99.9162 | 87.9114 | 10731 | 12 | 10731 | 9 | 9 | 100.0000 | |