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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14151-14200 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | * | map_siren | homalt | 99.4733 | 99.4727 | 99.4739 | 78.7290 | 2641 | 14 | 2647 | 14 | 9 | 64.2857 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.2000 | 97.2028 | 99.2178 | 83.0336 | 2641 | 76 | 2537 | 20 | 1 | 5.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5100 | 99.3604 | 99.6600 | 70.5987 | 2641 | 17 | 2638 | 9 | 2 | 22.2222 | |
| hfeng-pmm2 | INDEL | * | map_siren | homalt | 99.3610 | 99.4350 | 99.2871 | 79.4763 | 2640 | 15 | 2646 | 19 | 12 | 63.1579 | |
| jli-custom | INDEL | * | map_siren | homalt | 99.3607 | 99.4350 | 99.2865 | 79.8135 | 2640 | 15 | 2644 | 19 | 11 | 57.8947 | |
| dgrover-gatk | INDEL | * | map_siren | homalt | 99.3423 | 99.4350 | 99.2498 | 81.7385 | 2640 | 15 | 2646 | 20 | 11 | 55.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | * | het | 98.2484 | 97.1302 | 99.3926 | 71.9668 | 2640 | 78 | 2618 | 16 | 8 | 50.0000 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e1 | homalt | 98.2472 | 97.0935 | 99.4288 | 88.0788 | 2639 | 79 | 2611 | 15 | 10 | 66.6667 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 78.9545 | 65.5001 | 99.3652 | 25.9198 | 2639 | 1390 | 2661 | 17 | 17 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 47.1342 | 38.1966 | 61.5321 | 37.8247 | 2639 | 4270 | 5213 | 3259 | 2660 | 81.6201 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 76.9837 | 67.6931 | 89.2302 | 57.8962 | 2638 | 1259 | 2643 | 319 | 317 | 99.3730 | |
| raldana-dualsentieon | INDEL | * | map_siren | homalt | 99.3604 | 99.3597 | 99.3611 | 79.7735 | 2638 | 17 | 2644 | 17 | 11 | 64.7059 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | homalt | 99.0054 | 98.2130 | 99.8108 | 88.9664 | 2638 | 48 | 2638 | 5 | 5 | 100.0000 | |
| ciseli-custom | SNP | tv | func_cds | het | 92.8964 | 99.2473 | 87.3095 | 32.0576 | 2637 | 20 | 2635 | 383 | 2 | 0.5222 | |
| ckim-gatk | INDEL | * | map_siren | homalt | 99.3412 | 99.2844 | 99.3980 | 81.7081 | 2636 | 19 | 2642 | 16 | 9 | 56.2500 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3594 | 99.1723 | 99.5472 | 71.1298 | 2636 | 22 | 2638 | 12 | 6 | 50.0000 | |
| ckim-vqsr | INDEL | * | map_siren | homalt | 99.3599 | 99.2844 | 99.4355 | 81.7137 | 2636 | 19 | 2642 | 15 | 8 | 53.3333 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7046 | 97.0188 | 92.4983 | 89.7173 | 2636 | 81 | 2762 | 224 | 60 | 26.7857 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 81.6561 | 69.2510 | 99.4755 | 31.4587 | 2635 | 1170 | 2655 | 14 | 14 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4163 | 99.1347 | 99.6996 | 67.2044 | 2635 | 23 | 2655 | 8 | 4 | 50.0000 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.5465 | 99.6219 | 99.4711 | 83.1776 | 2635 | 10 | 2633 | 14 | 8 | 57.1429 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 53.4542 | 96.4142 | 36.9777 | 47.8842 | 2635 | 98 | 2655 | 4525 | 4487 | 99.1602 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.4573 | 73.9961 | 93.1034 | 68.3567 | 2635 | 926 | 2673 | 198 | 164 | 82.8283 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 73.9522 | 65.2228 | 85.3794 | 65.4520 | 2635 | 1405 | 2914 | 499 | 370 | 74.1483 | |
| eyeh-varpipe | SNP | tv | map_l250_m1_e0 | * | 98.7000 | 99.5089 | 97.9042 | 90.2532 | 2634 | 13 | 2616 | 56 | 6 | 10.7143 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.4740 | 66.1145 | 68.8906 | 60.7168 | 2634 | 1350 | 2726 | 1231 | 537 | 43.6231 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9667 | 98.0640 | 99.8862 | 50.8114 | 2634 | 52 | 2634 | 3 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4336 | 99.0594 | 99.8106 | 68.9594 | 2633 | 25 | 2635 | 5 | 3 | 60.0000 | |
| gduggal-bwaplat | SNP | tv | func_cds | het | 99.3960 | 99.0967 | 99.6971 | 49.3090 | 2633 | 24 | 2633 | 8 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | * | het | 85.3103 | 83.3175 | 87.4007 | 59.5500 | 2632 | 527 | 2310 | 333 | 202 | 60.6607 | |
| jlack-gatk | INDEL | I16_PLUS | * | het | 96.8584 | 96.8359 | 96.8808 | 75.4914 | 2632 | 86 | 2609 | 84 | 21 | 25.0000 | |
| jpowers-varprowl | SNP | tv | func_cds | het | 98.3558 | 99.0591 | 97.6623 | 39.9644 | 2632 | 25 | 2632 | 63 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | map_siren | homalt | 99.1343 | 99.0960 | 99.1726 | 81.5411 | 2631 | 24 | 2637 | 22 | 15 | 68.1818 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.9101 | 98.0611 | 99.7739 | 42.7400 | 2630 | 52 | 2648 | 6 | 6 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 28.3070 | 0.0000 | 0.0000 | 2630 | 6661 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 28.3070 | 0.0000 | 0.0000 | 2630 | 6661 | 0 | 0 | 0 | ||
| rpoplin-dv42 | SNP | * | map_l250_m2_e0 | homalt | 98.7237 | 97.9151 | 99.5458 | 87.7612 | 2630 | 56 | 2630 | 12 | 12 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_siren | homalt | 99.1894 | 99.0584 | 99.3208 | 79.6138 | 2630 | 25 | 2632 | 18 | 11 | 61.1111 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0211 | 98.0611 | 100.0000 | 42.7615 | 2630 | 52 | 2649 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | func_cds | het | 99.1144 | 98.9838 | 99.2453 | 45.4845 | 2630 | 27 | 2630 | 20 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0767 | 99.3951 | 98.7603 | 83.0758 | 2629 | 16 | 2629 | 33 | 6 | 18.1818 | |
| jpowers-varprowl | SNP | * | map_l250_m2_e1 | homalt | 98.1703 | 96.7255 | 99.6588 | 90.0637 | 2629 | 89 | 2629 | 9 | 5 | 55.5556 | |
| jlack-gatk | INDEL | * | map_siren | homalt | 99.0590 | 99.0207 | 99.0974 | 80.4586 | 2629 | 26 | 2635 | 24 | 14 | 58.3333 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2822 | 99.3573 | 99.2072 | 83.9930 | 2628 | 17 | 2628 | 21 | 7 | 33.3333 | |
| cchapple-custom | SNP | ti | map_l150_m0_e0 | homalt | 97.5139 | 95.1829 | 99.9619 | 70.3118 | 2628 | 133 | 2627 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8721 | 97.9866 | 99.7738 | 42.6347 | 2628 | 54 | 2646 | 6 | 6 | 100.0000 | |
| ckim-isaac | SNP | * | map_l250_m2_e0 | het | 67.0153 | 50.5776 | 99.2819 | 92.1809 | 2627 | 2567 | 2627 | 19 | 2 | 10.5263 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.6423 | 87.1021 | 73.3594 | 90.7618 | 2627 | 389 | 2627 | 954 | 23 | 2.4109 | |
| ckim-dragen | INDEL | * | map_siren | homalt | 98.9825 | 98.9454 | 99.0196 | 81.6305 | 2627 | 28 | 2626 | 26 | 15 | 57.6923 | |
| ckim-isaac | INDEL | * | map_l100_m2_e1 | * | 81.7169 | 69.9148 | 98.3127 | 84.3697 | 2626 | 1130 | 2622 | 45 | 21 | 46.6667 | |