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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
14001-14050 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | map_l100_m2_e1 | homalt | 91.8309 | 85.3756 | 99.3422 | 61.4163 | 23731 | 4065 | 23410 | 155 | 133 | 85.8065 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m1_e0 | het | 64.3883 | 66.6667 | 62.2605 | 88.3768 | 324 | 162 | 325 | 197 | 169 | 85.7868 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 63.8421 | 54.7304 | 76.5939 | 75.6642 | 8799 | 7278 | 8770 | 2680 | 2299 | 85.7836 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 63.8421 | 54.7304 | 76.5939 | 75.6642 | 8799 | 7278 | 8770 | 2680 | 2299 | 85.7836 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 46.0118 | 32.0942 | 81.2424 | 56.6189 | 2685 | 5681 | 2681 | 619 | 531 | 85.7835 | |
| ciseli-custom | INDEL | I1_5 | map_l125_m1_e0 | * | 58.9106 | 52.7711 | 66.6667 | 88.0351 | 438 | 392 | 436 | 218 | 187 | 85.7798 | |
| qzeng-custom | SNP | ti | map_l150_m1_e0 | * | 79.6789 | 67.7202 | 96.7669 | 86.5194 | 13349 | 6363 | 13259 | 443 | 380 | 85.7788 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.2874 | 71.9726 | 85.8170 | 51.6431 | 7976 | 3106 | 8120 | 1342 | 1151 | 85.7675 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7349 | 99.8133 | 99.6566 | 54.0176 | 10159 | 19 | 10157 | 35 | 30 | 85.7143 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m1_e0 | homalt | 98.9030 | 98.9865 | 98.8196 | 81.4803 | 586 | 6 | 586 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | homalt | 98.9370 | 99.0180 | 98.8562 | 82.4087 | 605 | 6 | 605 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | homalt | 98.9525 | 99.0323 | 98.8728 | 82.5169 | 614 | 6 | 614 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 64.0965 | 47.4352 | 98.7989 | 37.2929 | 3403 | 3771 | 2879 | 35 | 30 | 85.7143 | |
| ndellapenna-hhga | INDEL | D6_15 | segdup | het | 94.7959 | 96.7391 | 92.9293 | 94.1351 | 89 | 3 | 92 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.0752 | 90.4494 | 95.8580 | 71.6918 | 161 | 17 | 162 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.2022 | 93.2476 | 87.3494 | 68.7382 | 290 | 21 | 290 | 42 | 36 | 85.7143 | |
| ndellapenna-hhga | SNP | * | map_l125_m0_e0 | homalt | 99.5815 | 99.2700 | 99.8951 | 66.7961 | 6663 | 49 | 6663 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | I1_5 | segdup | homalt | 99.1688 | 99.7886 | 98.5567 | 91.3377 | 472 | 1 | 478 | 7 | 6 | 85.7143 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 85.9606 | 75.6948 | 99.4477 | 36.9246 | 2669 | 857 | 2521 | 14 | 12 | 85.7143 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 85.9606 | 75.6948 | 99.4477 | 36.9246 | 2669 | 857 | 2521 | 14 | 12 | 85.7143 | |
| qzeng-custom | SNP | ti | map_l150_m0_e0 | * | 73.3597 | 60.0560 | 94.2346 | 92.3897 | 4721 | 3140 | 4691 | 287 | 246 | 85.7143 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9116 | 99.2110 | 98.6139 | 86.9408 | 503 | 4 | 498 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.6633 | 97.6712 | 99.6756 | 43.8460 | 2139 | 51 | 2151 | 7 | 6 | 85.7143 | |
| ltrigg-rtg2 | SNP | * | HG002compoundhet | homalt | 99.4265 | 98.9241 | 99.9340 | 32.8863 | 10666 | 116 | 10603 | 7 | 6 | 85.7143 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 70.4102 | 58.6207 | 88.1356 | 99.8947 | 51 | 36 | 52 | 7 | 6 | 85.7143 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 57.4257 | 40.5021 | 98.6434 | 49.1124 | 484 | 711 | 509 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1087 | 92.3483 | 98.0392 | 62.9283 | 350 | 29 | 350 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3467 | 99.2253 | 99.4684 | 49.9176 | 11783 | 92 | 11787 | 63 | 54 | 85.7143 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6420 | 97.5355 | 99.7738 | 49.4362 | 3087 | 78 | 3087 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8367 | 87.8049 | 96.2567 | 84.7844 | 180 | 25 | 180 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 84.6154 | 95.6522 | 75.8621 | 82.5301 | 22 | 1 | 22 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 92.9134 | 96.7213 | 89.3939 | 84.5794 | 59 | 2 | 59 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8367 | 87.8049 | 96.2567 | 84.7844 | 180 | 25 | 180 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.2661 | 86.8078 | 96.2071 | 67.4824 | 1599 | 243 | 1598 | 63 | 54 | 85.7143 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.9089 | 82.5503 | 89.5522 | 75.5027 | 123 | 26 | 120 | 14 | 12 | 85.7143 | |
| rpoplin-dv42 | INDEL | I6_15 | map_siren | * | 93.6968 | 90.1639 | 97.5177 | 81.7829 | 275 | 30 | 275 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.4731 | 87.4402 | 98.1208 | 65.4453 | 731 | 105 | 731 | 14 | 12 | 85.7143 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.2891 | 92.0962 | 98.7113 | 50.7555 | 3216 | 276 | 3217 | 42 | 36 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | map_l100_m0_e0 | homalt | 99.7165 | 99.5241 | 99.9096 | 57.9975 | 7737 | 37 | 7737 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | map_l150_m1_e0 | homalt | 99.6923 | 99.4814 | 99.9041 | 67.2252 | 7289 | 38 | 7289 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | map_l150_m2_e0 | homalt | 99.6974 | 99.4879 | 99.9077 | 69.7016 | 7577 | 39 | 7577 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | ti | map_l150_m2_e1 | homalt | 99.6939 | 99.4800 | 99.9086 | 69.7472 | 7653 | 40 | 7653 | 7 | 6 | 85.7143 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.0360 | 92.8854 | 99.4078 | 87.3434 | 1175 | 90 | 1175 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | homalt | 98.9747 | 98.9071 | 99.0424 | 85.2054 | 724 | 8 | 724 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e0 | homalt | 99.0164 | 98.9515 | 99.0814 | 86.1076 | 755 | 8 | 755 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | homalt | 99.0304 | 98.9664 | 99.0944 | 86.2407 | 766 | 8 | 766 | 7 | 6 | 85.7143 | |
| rpoplin-dv42 | INDEL | * | map_l150_m2_e1 | homalt | 98.6802 | 98.7805 | 98.5801 | 89.0274 | 486 | 6 | 486 | 7 | 6 | 85.7143 | |
| mlin-fermikit | SNP | * | tech_badpromoters | homalt | 95.1807 | 98.7500 | 91.8605 | 44.8718 | 79 | 1 | 79 | 7 | 6 | 85.7143 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.6834 | 100.0000 | 97.4010 | 66.6941 | 786 | 0 | 787 | 21 | 18 | 85.7143 | |
| ndellapenna-hhga | INDEL | * | * | hetalt | 84.9841 | 74.5730 | 98.7738 | 62.9843 | 18820 | 6417 | 18044 | 224 | 192 | 85.7143 | |