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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
35801-35850 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 59.6473 | 59.7203 | 59.5745 | 39.9758 | 12300 | 8296 | 17724 | 12027 | 10545 | 87.6777 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 56.7953 | 54.2639 | 59.5745 | 64.3309 | 35462 | 29889 | 35420 | 24035 | 23631 | 98.3191 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 56.7953 | 54.2639 | 59.5745 | 64.3309 | 35462 | 29889 | 35420 | 24035 | 23631 | 98.3191 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 54.3121 | 49.8996 | 59.5807 | 47.5940 | 21624 | 21711 | 28700 | 19470 | 15099 | 77.5501 | |
| eyeh-varpipe | INDEL | D6_15 | * | homalt | 70.9562 | 87.6541 | 59.6022 | 44.0635 | 5545 | 781 | 5543 | 3757 | 3655 | 97.2851 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 54.6126 | 50.3907 | 59.6067 | 38.4218 | 16121 | 15871 | 22551 | 15282 | 11968 | 78.3144 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 54.2561 | 49.7820 | 59.6139 | 54.7156 | 1941 | 1958 | 3057 | 2071 | 1674 | 80.8305 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.4349 | 24.2003 | 59.6699 | 64.4061 | 1672 | 5237 | 1663 | 1124 | 1036 | 92.1708 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.3612 | 91.8919 | 59.6774 | 74.1667 | 136 | 12 | 111 | 75 | 74 | 98.6667 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m1_e0 | het | 57.0736 | 54.6875 | 59.6774 | 93.7183 | 35 | 29 | 37 | 25 | 4 | 16.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.3996 | 88.8382 | 59.6839 | 72.7955 | 1751 | 220 | 1775 | 1199 | 1169 | 97.4979 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.3996 | 88.8382 | 59.6839 | 72.7955 | 1751 | 220 | 1775 | 1199 | 1169 | 97.4979 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 72.9858 | 93.9024 | 59.6899 | 69.3587 | 77 | 5 | 77 | 52 | 48 | 92.3077 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.9921 | 66.6667 | 59.7015 | 56.2092 | 6 | 3 | 40 | 27 | 24 | 88.8889 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 71.4286 | 88.8889 | 59.7015 | 47.6562 | 40 | 5 | 40 | 27 | 26 | 96.2963 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 59.7222 | 96.2284 | 0 | 0 | 43 | 29 | 12 | 41.3793 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | * | 54.4680 | 50.0613 | 59.7255 | 65.1711 | 6125 | 6110 | 6092 | 4108 | 4053 | 98.6611 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 57.9193 | 56.2153 | 59.7299 | 62.4801 | 36735 | 28612 | 56563 | 38135 | 29523 | 77.4171 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 57.9193 | 56.2153 | 59.7299 | 62.4801 | 36735 | 28612 | 56563 | 38135 | 29523 | 77.4171 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.8072 | 96.5392 | 59.7403 | 70.7317 | 530 | 19 | 552 | 372 | 31 | 8.3333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 68.6189 | 80.5430 | 59.7701 | 87.2900 | 178 | 43 | 208 | 140 | 52 | 37.1429 | |
| hfeng-pmm3 | INDEL | * | HG002compoundhet | homalt | 74.6579 | 99.4169 | 59.7721 | 77.4506 | 682 | 4 | 682 | 459 | 454 | 98.9107 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 59.7826 | 94.1289 | 0 | 0 | 55 | 37 | 4 | 10.8108 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 58.8731 | 57.9621 | 59.8131 | 41.7312 | 1132 | 821 | 1216 | 817 | 563 | 68.9106 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 71.7070 | 89.4928 | 59.8187 | 91.4779 | 247 | 29 | 198 | 133 | 8 | 6.0150 | |
| jlack-gatk | INDEL | I6_15 | HG002compoundhet | het | 73.9198 | 96.6346 | 59.8513 | 81.3194 | 201 | 7 | 161 | 108 | 105 | 97.2222 | |
| gduggal-snapvard | SNP | tv | map_l250_m0_e0 | het | 73.2695 | 94.4056 | 59.8662 | 94.2393 | 540 | 32 | 537 | 360 | 2 | 0.5556 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 56.8616 | 54.1076 | 59.9109 | 50.1524 | 11144 | 9452 | 11168 | 7473 | 5485 | 73.3976 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.3724 | 82.3394 | 59.9338 | 79.2083 | 359 | 77 | 362 | 242 | 234 | 96.6942 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 42.2458 | 32.6120 | 59.9579 | 69.4254 | 1733 | 3581 | 1710 | 1142 | 1085 | 95.0088 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 59.9593 | 59.9593 | 59.9593 | 55.8744 | 295 | 197 | 295 | 197 | 173 | 87.8173 | |
| anovak-vg | SNP | tv | map_l250_m1_e0 | het | 70.5665 | 85.7303 | 59.9607 | 91.6253 | 1532 | 255 | 1526 | 1019 | 231 | 22.6693 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.4883 | 82.5826 | 59.9782 | 80.9276 | 550 | 116 | 550 | 367 | 359 | 97.8202 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.4883 | 82.5826 | 59.9782 | 80.9276 | 550 | 116 | 550 | 367 | 359 | 97.8202 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 69.7674 | 83.3333 | 60.0000 | 98.9806 | 5 | 1 | 6 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 47.1513 | 38.8350 | 60.0000 | 86.3874 | 80 | 126 | 78 | 52 | 50 | 96.1538 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | het | 60.0000 | 60.0000 | 60.0000 | 98.1982 | 6 | 4 | 6 | 4 | 1 | 25.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l250_m1_e0 | * | 66.6667 | 75.0000 | 60.0000 | 99.5155 | 3 | 1 | 3 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l250_m1_e0 | het | 75.0000 | 100.0000 | 60.0000 | 99.2212 | 3 | 0 | 3 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l250_m2_e0 | het | 75.0000 | 100.0000 | 60.0000 | 99.2504 | 3 | 0 | 3 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l250_m2_e1 | het | 75.0000 | 100.0000 | 60.0000 | 99.2548 | 3 | 0 | 3 | 2 | 1 | 50.0000 | |
| gduggal-snapplat | INDEL | I6_15 | tech_badpromoters | * | 33.3333 | 23.0769 | 60.0000 | 66.6667 | 3 | 10 | 3 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 94.1860 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | ti | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 90.5660 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | tv | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 94.1860 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 60.0000 | 94.2857 | 0 | 0 | 18 | 12 | 4 | 33.3333 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 71.6418 | 88.8889 | 60.0000 | 93.5484 | 8 | 1 | 6 | 4 | 1 | 25.0000 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 0.0000 | 0.0000 | 60.0000 | 89.5833 | 0 | 0 | 3 | 2 | 0 | 0.0000 | |