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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68401-68450 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2704 | 99.1149 | 99.4264 | 74.8452 | 5375 | 48 | 5373 | 31 | 27 | 87.0968 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2704 | 99.1149 | 99.4264 | 74.8452 | 5375 | 48 | 5373 | 31 | 27 | 87.0968 | |
| ndellapenna-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.8620 | 98.3731 | 99.3556 | 61.7355 | 4777 | 79 | 4780 | 31 | 21 | 67.7419 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | het | 98.5385 | 97.5525 | 99.5446 | 72.4747 | 6776 | 170 | 6776 | 31 | 13 | 41.9355 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5178 | 99.1870 | 97.8576 | 69.7090 | 1342 | 11 | 1416 | 31 | 10 | 32.2581 | |
| qzeng-custom | INDEL | * | map_l150_m0_e0 | het | 80.0048 | 71.5543 | 90.7186 | 97.0277 | 244 | 97 | 303 | 31 | 16 | 51.6129 | |
| qzeng-custom | INDEL | * | map_l250_m2_e1 | het | 76.6254 | 69.1943 | 85.8447 | 98.2768 | 146 | 65 | 188 | 31 | 16 | 51.6129 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9660 | 97.1407 | 98.8054 | 65.3168 | 2582 | 76 | 2564 | 31 | 30 | 96.7742 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 94.1085 | 98.8889 | 89.7690 | 62.4535 | 267 | 3 | 272 | 31 | 1 | 3.2258 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 82.7487 | 71.4392 | 98.3125 | 49.4079 | 1916 | 766 | 1806 | 31 | 20 | 64.5161 | |
| ndellapenna-hhga | INDEL | * | map_l100_m0_e0 | het | 97.0778 | 97.1596 | 96.9961 | 85.3472 | 992 | 29 | 1001 | 31 | 4 | 12.9032 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.0643 | 93.0175 | 93.1111 | 72.1190 | 373 | 28 | 419 | 31 | 26 | 83.8710 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 63.3251 | 46.6890 | 98.3795 | 37.6873 | 2228 | 2544 | 1882 | 31 | 28 | 90.3226 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 70.8955 | 66.9014 | 75.3968 | 42.7273 | 95 | 47 | 95 | 31 | 29 | 93.5484 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002complexvar | het | 92.9757 | 90.9774 | 95.0637 | 67.1720 | 605 | 60 | 597 | 31 | 15 | 48.3871 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.2032 | 91.8723 | 98.7848 | 43.0326 | 2532 | 224 | 2520 | 31 | 30 | 96.7742 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8577 | 98.8657 | 98.8497 | 50.4413 | 2702 | 31 | 2664 | 31 | 15 | 48.3871 | |
| ltrigg-rtg2 | SNP | * | map_l150_m1_e0 | het | 98.0986 | 96.4227 | 99.8338 | 58.7339 | 18625 | 691 | 18625 | 31 | 2 | 6.4516 | |
| ltrigg-rtg2 | SNP | ti | segdup | homalt | 99.7804 | 99.9734 | 99.5881 | 87.6176 | 7503 | 2 | 7496 | 31 | 31 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m0_e0 | * | 45.7741 | 60.7143 | 36.7347 | 93.3243 | 17 | 11 | 18 | 31 | 4 | 12.9032 | |
| mlin-fermikit | INDEL | D16_PLUS | map_siren | het | 71.4286 | 76.9231 | 66.6667 | 92.1980 | 60 | 18 | 62 | 31 | 14 | 45.1613 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | het | 89.5033 | 81.3487 | 99.4750 | 78.3064 | 5875 | 1347 | 5874 | 31 | 7 | 22.5806 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3069 | 0 | 0 | 0 | 31 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3955 | 88.2236 | 96.9815 | 64.0909 | 884 | 118 | 996 | 31 | 27 | 87.0968 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8836 | 92.6404 | 99.3621 | 26.9063 | 4305 | 342 | 4829 | 31 | 30 | 96.7742 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | * | 93.2137 | 88.1864 | 98.8489 | 83.6431 | 2650 | 355 | 2662 | 31 | 7 | 22.5806 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.8703 | 95.1801 | 98.6216 | 73.1527 | 1876 | 95 | 2218 | 31 | 19 | 61.2903 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.8703 | 95.1801 | 98.6216 | 73.1527 | 1876 | 95 | 2218 | 31 | 19 | 61.2903 | |
| bgallagher-sentieon | SNP | ti | map_l250_m0_e0 | het | 97.6670 | 98.6081 | 96.7437 | 93.8565 | 921 | 13 | 921 | 31 | 5 | 16.1290 | |
| bgallagher-sentieon | SNP | tv | * | homalt | 99.9838 | 99.9759 | 99.9918 | 19.9074 | 377032 | 91 | 377017 | 31 | 25 | 80.6452 | |
| bgallagher-sentieon | SNP | tv | map_l250_m0_e0 | * | 97.0246 | 98.0392 | 96.0307 | 93.0983 | 750 | 15 | 750 | 31 | 5 | 16.1290 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7580 | 97.6793 | 97.8367 | 88.4863 | 1389 | 33 | 1402 | 31 | 10 | 32.2581 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.5221 | 95.5960 | 99.5274 | 32.5866 | 6512 | 300 | 6529 | 31 | 31 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.7010 | 99.6632 | 99.7389 | 50.8366 | 11835 | 40 | 11840 | 31 | 16 | 51.6129 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 97.1552 | 96.0498 | 98.2863 | 84.7368 | 1775 | 73 | 1778 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 97.1748 | 96.0313 | 98.3458 | 85.2927 | 1839 | 76 | 1843 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | * | 97.1296 | 95.9257 | 98.3641 | 85.3950 | 1860 | 79 | 1864 | 31 | 6 | 19.3548 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9798 | 94.5444 | 99.5441 | 27.3611 | 6724 | 388 | 6768 | 31 | 30 | 96.7742 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9771 | 94.5358 | 99.5479 | 27.9803 | 6782 | 392 | 6826 | 31 | 30 | 96.7742 | |
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 24.3902 | 79.5000 | 0 | 1 | 10 | 31 | 0 | 0.0000 | |
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 22.5000 | 78.2609 | 0 | 1 | 9 | 31 | 0 | 0.0000 | |
| anovak-vg | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 8.8235 | 73.0159 | 0 | 0 | 3 | 31 | 4 | 12.9032 | |
| anovak-vg | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 8.8235 | 71.9008 | 0 | 0 | 3 | 31 | 4 | 12.9032 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 89.8651 | 88.3469 | 91.4365 | 80.2294 | 326 | 43 | 331 | 31 | 20 | 64.5161 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e0 | homalt | 89.8935 | 85.7610 | 94.4444 | 82.5788 | 524 | 87 | 527 | 31 | 29 | 93.5484 | |
| anovak-vg | INDEL | D6_15 | segdup | * | 70.1754 | 62.8272 | 79.4702 | 93.2348 | 120 | 71 | 120 | 31 | 23 | 74.1935 | |
| anovak-vg | INDEL | I1_5 | map_l250_m1_e0 | homalt | 69.3408 | 88.6364 | 56.9444 | 94.4573 | 39 | 5 | 41 | 31 | 28 | 90.3226 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 37.4335 | 27.0492 | 60.7595 | 65.3509 | 33 | 89 | 48 | 31 | 14 | 45.1613 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | het | 95.3423 | 94.3860 | 96.3183 | 91.2356 | 807 | 48 | 811 | 31 | 4 | 12.9032 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1597 | 98.9715 | 99.3486 | 67.2313 | 4715 | 49 | 4728 | 31 | 4 | 12.9032 | |