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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40601-40650 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 79.7416 | 66.9975 | 98.4728 | 66.8746 | 10329 | 5088 | 9672 | 150 | 125 | 83.3333 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m1_e0 | het | 79.7395 | 96.6667 | 67.8571 | 96.3721 | 58 | 2 | 95 | 45 | 12 | 26.6667 | |
| gduggal-snapplat | INDEL | * | map_l125_m0_e0 | * | 79.7334 | 72.3356 | 88.8166 | 94.7534 | 638 | 244 | 683 | 86 | 13 | 15.1163 | |
| anovak-vg | SNP | * | map_l150_m2_e1 | * | 79.7323 | 86.0571 | 74.2735 | 80.0613 | 27719 | 4491 | 27398 | 9490 | 2194 | 23.1191 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 79.7299 | 67.0588 | 98.3051 | 62.1795 | 57 | 28 | 58 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 79.7260 | 75.6106 | 84.3152 | 58.0080 | 4458 | 1438 | 2204 | 410 | 248 | 60.4878 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 79.7260 | 75.6106 | 84.3152 | 58.0080 | 4458 | 1438 | 2204 | 410 | 248 | 60.4878 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | homalt | 79.7254 | 79.6774 | 79.7735 | 78.1084 | 494 | 126 | 493 | 125 | 119 | 95.2000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m2_e1 | het | 79.7221 | 68.1481 | 96.0317 | 76.1815 | 92 | 43 | 121 | 5 | 4 | 80.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m2_e0 | homalt | 79.7203 | 87.6923 | 73.0769 | 77.0925 | 57 | 8 | 76 | 28 | 3 | 10.7143 | |
| qzeng-custom | SNP | tv | map_l150_m0_e0 | het | 79.7044 | 70.2075 | 92.1723 | 93.6869 | 1996 | 847 | 1990 | 169 | 138 | 81.6568 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e0 | het | 79.6992 | 86.8852 | 73.6111 | 90.3356 | 53 | 8 | 53 | 19 | 15 | 78.9474 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e1 | het | 79.6992 | 86.8852 | 73.6111 | 90.4762 | 53 | 8 | 53 | 19 | 15 | 78.9474 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 79.6992 | 74.6479 | 85.4839 | 48.7603 | 53 | 18 | 53 | 9 | 7 | 77.7778 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 79.6963 | 66.2459 | 100.0000 | 93.7500 | 1207 | 615 | 1 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.6945 | 66.8919 | 98.5577 | 39.0625 | 99 | 49 | 615 | 9 | 9 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 79.6906 | 72.0588 | 89.1304 | 56.8075 | 49 | 19 | 82 | 10 | 10 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6904 | 73.7069 | 86.7312 | 40.6237 | 342 | 122 | 1255 | 192 | 190 | 98.9583 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 79.6846 | 71.7362 | 89.6138 | 68.4553 | 2698 | 1063 | 2692 | 312 | 233 | 74.6795 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 79.6846 | 71.7362 | 89.6138 | 68.4553 | 2698 | 1063 | 2692 | 312 | 233 | 74.6795 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m0_e0 | * | 79.6826 | 70.2128 | 92.1053 | 89.7849 | 33 | 14 | 35 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.6791 | 72.3301 | 88.6905 | 83.5616 | 149 | 57 | 149 | 19 | 11 | 57.8947 | |
| qzeng-custom | SNP | ti | map_l150_m1_e0 | * | 79.6789 | 67.7202 | 96.7669 | 86.5194 | 13349 | 6363 | 13259 | 443 | 380 | 85.7788 | |
| cchapple-custom | INDEL | D16_PLUS | map_l100_m2_e1 | * | 79.6787 | 78.3505 | 81.0526 | 92.1811 | 76 | 21 | 77 | 18 | 9 | 50.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 79.6774 | 71.3873 | 90.1460 | 83.5435 | 247 | 99 | 247 | 27 | 5 | 18.5185 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 79.6748 | 72.0588 | 89.0909 | 96.9846 | 49 | 19 | 49 | 6 | 6 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | homalt | 79.6703 | 99.6564 | 66.3616 | 87.7109 | 290 | 1 | 290 | 147 | 146 | 99.3197 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 79.6677 | 66.2895 | 99.8110 | 27.4375 | 4804 | 2443 | 4754 | 9 | 9 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.6660 | 86.7925 | 73.6211 | 64.8101 | 644 | 98 | 614 | 220 | 220 | 100.0000 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | * | 79.6649 | 97.8931 | 67.1595 | 54.5136 | 8735 | 188 | 8812 | 4309 | 247 | 5.7322 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6648 | 84.2067 | 75.5878 | 57.5613 | 9352 | 1754 | 9484 | 3063 | 1008 | 32.9089 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 79.6646 | 82.6087 | 76.9231 | 78.5124 | 19 | 4 | 20 | 6 | 6 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e0 | het | 79.6631 | 66.5996 | 99.1018 | 94.7845 | 331 | 166 | 331 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m2_e1 | * | 79.6555 | 76.2887 | 83.3333 | 87.4652 | 74 | 23 | 75 | 15 | 11 | 73.3333 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.6536 | 70.7724 | 91.0837 | 56.4003 | 2758 | 1139 | 1849 | 181 | 175 | 96.6851 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 79.6470 | 76.1905 | 83.4320 | 87.8636 | 1408 | 440 | 1410 | 280 | 137 | 48.9286 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.6460 | 66.5049 | 99.2593 | 44.6721 | 137 | 69 | 134 | 1 | 1 | 100.0000 | |
| anovak-vg | SNP | * | map_l150_m2_e0 | * | 79.6445 | 85.9852 | 74.1747 | 80.0306 | 27388 | 4464 | 27076 | 9427 | 2180 | 23.1251 | |
| gduggal-snapvard | SNP | tv | map_l250_m1_e0 | het | 79.6442 | 96.8663 | 67.6217 | 91.5354 | 1731 | 56 | 1723 | 825 | 28 | 3.3939 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.6423 | 87.1021 | 73.3594 | 90.7618 | 2627 | 389 | 2627 | 954 | 23 | 2.4109 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 79.6385 | 80.2817 | 79.0055 | 39.4649 | 114 | 28 | 143 | 38 | 18 | 47.3684 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.6367 | 72.0025 | 89.0817 | 63.6267 | 4552 | 1770 | 4569 | 560 | 555 | 99.1071 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.6367 | 72.0025 | 89.0817 | 63.6267 | 4552 | 1770 | 4569 | 560 | 555 | 99.1071 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.6299 | 72.3065 | 88.6040 | 54.8263 | 953 | 365 | 933 | 120 | 112 | 93.3333 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 79.6213 | 77.5816 | 81.7711 | 43.7436 | 3163 | 914 | 3158 | 704 | 666 | 94.6023 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002compoundhet | hetalt | 79.6129 | 66.1307 | 100.0000 | 26.1105 | 1275 | 653 | 1364 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | HG002complexvar | het | 79.6121 | 75.4140 | 84.3052 | 55.5219 | 1776 | 579 | 1735 | 323 | 120 | 37.1517 | |
| gduggal-snapplat | INDEL | * | map_siren | * | 79.6077 | 71.8219 | 89.2868 | 89.6136 | 5322 | 2088 | 5709 | 685 | 78 | 11.3869 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m1_e0 | * | 79.6064 | 66.4675 | 99.2196 | 91.7555 | 890 | 449 | 890 | 7 | 2 | 28.5714 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 79.6057 | 84.7414 | 75.0569 | 26.8642 | 1655 | 298 | 1649 | 548 | 546 | 99.6350 | |