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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
72301-72350 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.9933 | 91.3832 | 96.7568 | 85.7571 | 1612 | 152 | 1611 | 54 | 24 | 44.4444 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | het | 99.0953 | 98.4002 | 99.8002 | 62.6312 | 29463 | 479 | 29465 | 59 | 24 | 40.6780 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e0 | het | 99.1023 | 98.4194 | 99.7947 | 64.2605 | 30138 | 484 | 30140 | 62 | 24 | 38.7097 | |
| ndellapenna-hhga | SNP | ti | map_l100_m2_e1 | het | 99.1089 | 98.4335 | 99.7937 | 64.2644 | 30475 | 485 | 30477 | 63 | 24 | 38.0952 | |
| ndellapenna-hhga | SNP | tv | map_l100_m1_e0 | * | 99.2885 | 98.8123 | 99.7692 | 62.3765 | 24210 | 291 | 24210 | 56 | 24 | 42.8571 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | * | 99.2917 | 98.8335 | 99.7541 | 64.3936 | 24741 | 292 | 24741 | 61 | 24 | 39.3443 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | * | 99.2907 | 98.8332 | 99.7525 | 64.4232 | 24988 | 295 | 24988 | 62 | 24 | 38.7097 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 88.4879 | 79.8982 | 99.1469 | 44.6823 | 13347 | 3358 | 3254 | 28 | 24 | 85.7143 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 88.4879 | 79.8982 | 99.1469 | 44.6823 | 13347 | 3358 | 3254 | 28 | 24 | 85.7143 | |
| qzeng-custom | INDEL | * | map_l125_m0_e0 | * | 81.0033 | 71.7687 | 92.9654 | 94.3128 | 633 | 249 | 859 | 65 | 24 | 36.9231 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 55.9649 | 69.6970 | 46.7532 | 65.8537 | 46 | 20 | 72 | 82 | 24 | 29.2683 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 76.3336 | 82.0225 | 71.3826 | 66.3055 | 146 | 32 | 222 | 89 | 24 | 26.9663 | |
| qzeng-custom | INDEL | I1_5 | map_siren | * | 88.5587 | 81.9301 | 96.3544 | 82.1964 | 2462 | 543 | 2643 | 100 | 24 | 24.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 69.4864 | 63.7097 | 76.4151 | 99.9162 | 79 | 45 | 81 | 25 | 24 | 96.0000 | |
| 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 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | hetalt | 89.6769 | 82.4118 | 98.3466 | 51.6538 | 1729 | 369 | 1725 | 29 | 24 | 82.7586 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.0567 | 88.9908 | 91.1483 | 82.8689 | 388 | 48 | 381 | 37 | 24 | 64.8649 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.8564 | 81.2500 | 91.0165 | 80.0283 | 390 | 90 | 385 | 38 | 24 | 63.1579 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8678 | 98.2992 | 99.4430 | 40.4688 | 10230 | 177 | 10177 | 57 | 24 | 42.1053 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6532 | 98.4263 | 98.8811 | 62.2592 | 5754 | 92 | 5656 | 64 | 24 | 37.5000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6532 | 98.4263 | 98.8811 | 62.2592 | 5754 | 92 | 5656 | 64 | 24 | 37.5000 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e0 | * | 99.2235 | 98.6534 | 99.8003 | 56.1674 | 72968 | 996 | 72965 | 146 | 24 | 16.4384 | |
| ltrigg-rtg2 | SNP | * | map_l100_m2_e1 | * | 99.2263 | 98.6673 | 99.7916 | 56.2116 | 73741 | 996 | 73738 | 154 | 24 | 15.5844 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 52.8416 | 65.7143 | 44.1860 | 84.1912 | 23 | 12 | 19 | 24 | 24 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l100_m1_e0 | homalt | 99.8221 | 99.7445 | 99.8999 | 60.0030 | 26934 | 69 | 26933 | 27 | 24 | 88.8889 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5512 | 99.0752 | 98.0327 | 69.1780 | 30855 | 288 | 31094 | 624 | 24 | 3.8462 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5512 | 99.0752 | 98.0327 | 69.1780 | 30855 | 288 | 31094 | 624 | 24 | 3.8462 | |
| jli-custom | SNP | * | HG002compoundhet | het | 99.6122 | 99.6614 | 99.5631 | 45.6634 | 14130 | 48 | 14128 | 62 | 24 | 38.7097 | |
| jli-custom | SNP | * | map_l250_m2_e0 | het | 97.7202 | 96.5537 | 98.9152 | 87.0848 | 5015 | 179 | 5015 | 55 | 24 | 43.6364 | |
| jli-custom | SNP | * | map_l250_m2_e1 | het | 97.7120 | 96.5426 | 98.9101 | 87.1957 | 5082 | 182 | 5082 | 56 | 24 | 42.8571 | |
| jli-custom | SNP | * | map_siren | homalt | 99.8512 | 99.7462 | 99.9564 | 49.8643 | 55016 | 140 | 55010 | 24 | 24 | 100.0000 | |
| jli-custom | SNP | tv | * | homalt | 99.9816 | 99.9716 | 99.9915 | 19.9541 | 377016 | 107 | 377005 | 32 | 24 | 75.0000 | |
| jli-custom | SNP | tv | map_l100_m1_e0 | het | 99.2078 | 99.0984 | 99.3174 | 64.0498 | 15278 | 139 | 15277 | 105 | 24 | 22.8571 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | het | 99.2133 | 99.1190 | 99.3078 | 65.8320 | 15638 | 139 | 15637 | 109 | 24 | 22.0183 | |
| jli-custom | SNP | tv | map_l100_m2_e1 | het | 99.2181 | 99.1279 | 99.3085 | 65.9029 | 15799 | 139 | 15798 | 110 | 24 | 21.8182 | |
| jpowers-varprowl | INDEL | I16_PLUS | map_siren | * | 50.3401 | 43.0233 | 60.6557 | 78.9655 | 37 | 49 | 37 | 24 | 24 | 100.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8917 | 98.2074 | 97.5780 | 64.8285 | 17531 | 320 | 17606 | 437 | 24 | 5.4920 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.6259 | 94.6129 | 98.7264 | 59.9168 | 2090 | 119 | 2093 | 27 | 24 | 88.8889 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.0694 | 89.1185 | 97.3869 | 71.5714 | 1941 | 237 | 1938 | 52 | 24 | 46.1538 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5913 | 99.8586 | 99.3255 | 71.8824 | 3532 | 5 | 3534 | 24 | 24 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.6429 | 100.0000 | 89.8305 | 67.3582 | 211 | 0 | 212 | 24 | 24 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | * | hetalt | 96.8345 | 94.0598 | 99.7778 | 71.7595 | 10530 | 665 | 10776 | 24 | 24 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.1401 | 94.7708 | 99.6309 | 23.4581 | 6470 | 357 | 6479 | 24 | 24 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 49.9912 | 39.7086 | 67.4603 | 80.7634 | 218 | 331 | 255 | 123 | 24 | 19.5122 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | * | 54.0541 | 50.0000 | 58.8235 | 80.7547 | 57 | 57 | 60 | 42 | 24 | 57.1429 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5318 | 97.5161 | 97.5474 | 64.9131 | 2120 | 54 | 2108 | 53 | 24 | 45.2830 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2278 | 94.9810 | 97.5078 | 52.7941 | 1249 | 66 | 1252 | 32 | 24 | 75.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | * | hetalt | 94.3306 | 90.2765 | 98.7661 | 58.9229 | 1894 | 204 | 1921 | 24 | 24 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0769 | 99.5816 | 96.6171 | 61.4099 | 714 | 3 | 714 | 25 | 24 | 96.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.9389 | 94.3899 | 99.6295 | 24.2810 | 6444 | 383 | 6453 | 24 | 24 | 100.0000 | |