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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3451-3500 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8510 | 97.6024 | 98.1008 | 61.8066 | 42296 | 1039 | 42098 | 815 | 759 | 93.1288 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.4534 | 92.3513 | 94.5822 | 43.0987 | 9611 | 796 | 14228 | 815 | 315 | 38.6503 | |
| cchapple-custom | SNP | ti | map_l125_m1_e0 | het | 96.3594 | 97.1203 | 95.6103 | 76.7136 | 17740 | 526 | 17751 | 815 | 226 | 27.7301 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | het | 68.7756 | 84.4907 | 57.9897 | 63.2088 | 1460 | 268 | 1125 | 815 | 730 | 89.5706 | |
| gduggal-snapplat | SNP | ti | map_l150_m1_e0 | het | 92.8712 | 92.3848 | 93.3627 | 86.3201 | 11428 | 942 | 11450 | 814 | 456 | 56.0197 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 88.4632 | 80.3154 | 98.4508 | 79.5350 | 51748 | 12683 | 51729 | 814 | 499 | 61.3022 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6448 | 97.1963 | 98.0976 | 61.8032 | 42120 | 1215 | 41922 | 813 | 755 | 92.8659 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 77.9136 | 81.0000 | 75.0538 | 73.8785 | 2430 | 570 | 2443 | 812 | 202 | 24.8768 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 75.9729 | 97.1161 | 62.3900 | 67.1535 | 1347 | 40 | 1347 | 812 | 4 | 0.4926 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | het | 87.7038 | 79.5123 | 97.7769 | 80.6669 | 36066 | 9293 | 35714 | 812 | 655 | 80.6650 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.7207 | 98.0134 | 95.4617 | 70.0763 | 17465 | 354 | 17080 | 812 | 691 | 85.0985 | |
| gduggal-snapplat | SNP | tv | map_l100_m1_e0 | het | 94.6299 | 94.5320 | 94.7279 | 81.7875 | 14574 | 843 | 14572 | 811 | 394 | 48.5820 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 58.8151 | 45.7510 | 82.3221 | 66.0165 | 2778 | 3294 | 3772 | 810 | 398 | 49.1358 | |
| ghariani-varprowl | SNP | tv | map_l100_m1_e0 | * | 97.8612 | 98.9756 | 96.7717 | 72.1277 | 24250 | 251 | 24251 | 809 | 135 | 16.6873 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 78.4487 | 74.1077 | 83.3299 | 46.2271 | 1142 | 399 | 4044 | 809 | 800 | 98.8875 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 43.2336 | 78.7185 | 29.8002 | 45.0072 | 344 | 93 | 343 | 808 | 773 | 95.6683 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1393 | 96.8242 | 97.4564 | 67.3706 | 30976 | 1016 | 30958 | 808 | 786 | 97.2772 | |
| qzeng-custom | SNP | ti | map_siren | * | 92.5421 | 86.8188 | 99.0732 | 61.8902 | 87127 | 13228 | 86370 | 808 | 570 | 70.5446 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 52.7192 | 50.5474 | 55.0862 | 52.4074 | 1062 | 1039 | 991 | 808 | 803 | 99.3812 | |
| anovak-vg | SNP | ti | HG002compoundhet | homalt | 82.5870 | 78.8207 | 86.7313 | 34.8753 | 5828 | 1566 | 5275 | 807 | 534 | 66.1710 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.7791 | 28.9773 | 35.1807 | 45.7989 | 357 | 875 | 438 | 807 | 617 | 76.4560 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 73.6476 | 94.3083 | 60.4126 | 87.0492 | 1193 | 72 | 1230 | 806 | 74 | 9.1811 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 29.6071 | 24.5130 | 37.3737 | 73.8468 | 302 | 930 | 481 | 806 | 369 | 45.7816 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8420 | 95.6294 | 98.0857 | 58.9442 | 41441 | 1894 | 41248 | 805 | 768 | 95.4037 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8990 | 97.6739 | 98.1251 | 62.1451 | 42327 | 1008 | 42130 | 805 | 744 | 92.4224 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 81.7820 | 89.5719 | 75.2387 | 54.8652 | 2448 | 285 | 2443 | 804 | 793 | 98.6318 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.5407 | 95.2841 | 91.8599 | 48.3177 | 9072 | 449 | 9073 | 804 | 405 | 50.3731 | |
| ckim-dragen | SNP | * | segdup | * | 98.4991 | 99.8219 | 97.2109 | 92.1838 | 28017 | 50 | 28022 | 804 | 14 | 1.7413 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.8164 | 79.8780 | 33.1115 | 59.9867 | 393 | 99 | 398 | 804 | 747 | 92.9104 | |
| ciseli-custom | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 24.2938 | 93.8051 | 0 | 0 | 258 | 804 | 156 | 19.4030 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.9824 | 96.8153 | 97.1501 | 58.2231 | 27360 | 900 | 27373 | 803 | 642 | 79.9502 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 48.2628 | 55.3309 | 42.7960 | 40.3404 | 602 | 486 | 600 | 802 | 781 | 97.3815 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7218 | 88.4618 | 97.4128 | 51.1450 | 15763 | 2056 | 30197 | 802 | 660 | 82.2943 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2034 | 96.5701 | 97.8450 | 55.8440 | 36602 | 1300 | 36414 | 802 | 774 | 96.5087 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 69.3130 | 73.8369 | 65.3114 | 41.5571 | 1222 | 433 | 1510 | 802 | 609 | 75.9352 | |
| gduggal-bwafb | INDEL | D1_5 | HG002compoundhet | * | 91.0728 | 88.7045 | 93.5709 | 64.7882 | 10853 | 1382 | 11658 | 801 | 716 | 89.3883 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 39.2277 | 31.6516 | 51.5719 | 45.1410 | 665 | 1436 | 853 | 801 | 448 | 55.9301 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 46.8255 | 38.7947 | 59.0491 | 58.6382 | 1030 | 1625 | 1155 | 801 | 315 | 39.3258 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.2052 | 90.5600 | 93.9113 | 48.2920 | 10754 | 1121 | 12339 | 800 | 737 | 92.1250 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.3750 | 99.4887 | 95.3492 | 61.3437 | 16345 | 84 | 16381 | 799 | 639 | 79.9750 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | * | 70.6710 | 66.2407 | 75.7364 | 88.0952 | 2488 | 1268 | 2494 | 799 | 531 | 66.4581 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 80.6495 | 78.6024 | 82.8061 | 85.2794 | 3802 | 1035 | 3848 | 799 | 94 | 11.7647 | |
| raldana-dualsentieon | INDEL | * | * | het | 99.3035 | 99.0228 | 99.5858 | 57.9096 | 192236 | 1897 | 191867 | 798 | 611 | 76.5664 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.1353 | 97.1012 | 93.2475 | 55.2934 | 10786 | 322 | 11006 | 797 | 695 | 87.2020 | |
| gduggal-snapfb | INDEL | D6_15 | * | het | 85.3034 | 77.5966 | 94.7099 | 36.4009 | 8995 | 2597 | 14269 | 797 | 773 | 96.9887 | |
| hfeng-pmm1 | INDEL | * | HG002compoundhet | * | 94.8334 | 92.5834 | 97.1953 | 59.6665 | 27738 | 2222 | 27620 | 797 | 774 | 97.1142 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e1 | * | 99.0356 | 99.1356 | 98.9358 | 69.1822 | 74091 | 646 | 74093 | 797 | 164 | 20.5772 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6262 | 97.1247 | 98.1330 | 61.8291 | 42089 | 1246 | 41891 | 797 | 748 | 93.8519 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | * | 80.0189 | 76.9521 | 83.3403 | 49.7370 | 4080 | 1222 | 3982 | 796 | 779 | 97.8643 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e1 | het | 97.2241 | 99.3224 | 95.2126 | 76.7581 | 15830 | 108 | 15831 | 796 | 98 | 12.3116 | |