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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47251-47300 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 57.9068 | 46.9489 | 75.5372 | 67.0120 | 854 | 965 | 914 | 296 | 261 | 88.1757 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e0 | hetalt | 57.8947 | 42.3077 | 91.6667 | 78.1818 | 11 | 15 | 11 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 57.8916 | 83.4278 | 44.3245 | 56.1428 | 14866 | 2953 | 14940 | 18766 | 18665 | 99.4618 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 57.8898 | 44.1696 | 83.9744 | 90.0574 | 125 | 158 | 131 | 25 | 7 | 28.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 57.8720 | 92.5676 | 42.0945 | 50.6085 | 137 | 11 | 205 | 282 | 275 | 97.5177 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 57.8606 | 40.8740 | 99.0058 | 44.7850 | 1113 | 1610 | 1195 | 12 | 11 | 91.6667 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | homalt | 57.8604 | 40.7068 | 100.0000 | 78.4309 | 7453 | 10856 | 7453 | 0 | 0 | ||
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 57.8592 | 55.4482 | 60.4894 | 43.6279 | 17739 | 14253 | 30010 | 19602 | 17898 | 91.3070 | |
| anovak-vg | INDEL | I1_5 | map_l100_m2_e1 | * | 57.8586 | 58.9964 | 56.7639 | 84.9109 | 823 | 572 | 856 | 652 | 469 | 71.9325 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 57.8545 | 55.6351 | 60.2584 | 48.5091 | 20358 | 16234 | 20333 | 13410 | 13207 | 98.4862 | |
| gduggal-snapvard | INDEL | D6_15 | map_l250_m2_e0 | * | 57.8534 | 59.0909 | 56.6667 | 94.8980 | 13 | 9 | 17 | 13 | 7 | 53.8462 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 57.8173 | 89.4447 | 42.7138 | 55.6700 | 3254 | 384 | 3236 | 4340 | 4025 | 92.7419 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 57.8169 | 95.5224 | 41.4538 | 69.3558 | 192 | 9 | 211 | 298 | 13 | 4.3624 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | homalt | 57.8158 | 40.6627 | 100.0000 | 71.4889 | 540 | 788 | 540 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I16_PLUS | HG002complexvar | hetalt | 57.7977 | 43.2836 | 86.9565 | 69.5364 | 145 | 190 | 40 | 6 | 6 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l150_m2_e0 | * | 57.7918 | 43.6268 | 85.5779 | 66.0006 | 13896 | 17956 | 13891 | 2341 | 2055 | 87.7830 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e1 | het | 57.7898 | 40.7295 | 99.4439 | 97.7262 | 2144 | 3120 | 2146 | 12 | 3 | 25.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_siren | homalt | 57.7796 | 43.0769 | 87.7193 | 72.0588 | 56 | 74 | 50 | 7 | 7 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 57.7786 | 84.8230 | 43.8104 | 49.2561 | 8076 | 1445 | 8069 | 10349 | 9583 | 92.5983 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 57.7778 | 48.1481 | 72.2222 | 96.3710 | 13 | 14 | 13 | 5 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | segdup | * | 57.7618 | 43.4555 | 86.1111 | 95.1968 | 83 | 108 | 62 | 10 | 1 | 10.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 57.7611 | 43.8153 | 84.7293 | 69.3664 | 1594 | 2044 | 1487 | 268 | 182 | 67.9104 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 57.7607 | 47.6176 | 73.3945 | 69.4184 | 3198 | 3518 | 4720 | 1711 | 398 | 23.2613 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | het | 57.7466 | 40.8496 | 98.4828 | 55.5044 | 5712 | 8271 | 5712 | 88 | 4 | 4.5455 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m1_e0 | hetalt | 57.7428 | 42.3077 | 90.9091 | 78.4314 | 11 | 15 | 10 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | * | map_l250_m2_e1 | * | 57.7232 | 51.3514 | 65.9004 | 97.5500 | 171 | 162 | 172 | 89 | 44 | 49.4382 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l250_m1_e0 | het | 57.6923 | 40.5405 | 100.0000 | 98.9752 | 45 | 66 | 45 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 57.6923 | 40.5405 | 100.0000 | 85.4369 | 15 | 22 | 15 | 0 | 0 | ||
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 57.6923 | 55.5556 | 60.0000 | 97.8032 | 15 | 12 | 15 | 10 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 57.6740 | 98.5178 | 40.7711 | 77.3433 | 1994 | 30 | 2041 | 2965 | 42 | 1.4165 | |
| gduggal-snapvard | INDEL | D6_15 | map_l100_m1_e0 | homalt | 57.6307 | 42.1875 | 90.9091 | 76.0870 | 27 | 37 | 30 | 3 | 3 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l100_m2_e0 | hetalt | 57.6271 | 40.4762 | 100.0000 | 71.6667 | 17 | 25 | 17 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | map_l100_m2_e0 | hetalt | 57.6271 | 40.4762 | 100.0000 | 71.6667 | 17 | 25 | 17 | 0 | 0 | ||
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 57.6052 | 40.6053 | 99.0909 | 37.5000 | 322 | 471 | 327 | 3 | 2 | 66.6667 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 57.5970 | 40.5152 | 99.5822 | 36.4039 | 692 | 1016 | 715 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e0 | het | 57.5846 | 40.5275 | 99.4337 | 97.7208 | 2105 | 3089 | 2107 | 12 | 3 | 25.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 57.5781 | 55.1232 | 60.2618 | 82.2738 | 850 | 692 | 1151 | 759 | 32 | 4.2161 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 57.5634 | 52.4590 | 63.7681 | 43.4426 | 32 | 29 | 44 | 25 | 20 | 80.0000 | |
| ciseli-custom | INDEL | * | map_l250_m1_e0 | het | 57.5615 | 54.7368 | 60.6936 | 97.5902 | 104 | 86 | 105 | 68 | 32 | 47.0588 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 57.5581 | 73.3333 | 47.3684 | 85.4962 | 11 | 4 | 9 | 10 | 1 | 10.0000 | |
| ciseli-custom | INDEL | * | map_l250_m2_e1 | het | 57.5214 | 54.0284 | 61.4973 | 97.7292 | 114 | 97 | 115 | 72 | 33 | 45.8333 | |
| ckim-isaac | INDEL | * | map_l250_m1_e0 | homalt | 57.5163 | 40.3670 | 100.0000 | 93.4621 | 44 | 65 | 44 | 0 | 0 | ||
| ciseli-custom | INDEL | * | map_l250_m1_e0 | * | 57.5139 | 51.1475 | 65.6904 | 97.4137 | 156 | 149 | 157 | 82 | 40 | 48.7805 | |
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | hetalt | 57.5062 | 42.2964 | 89.7972 | 79.0515 | 4321 | 5895 | 4383 | 498 | 424 | 85.1406 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e0 | het | 57.4870 | 54.9296 | 60.2941 | 93.6685 | 39 | 32 | 41 | 27 | 5 | 18.5185 | |
| ciseli-custom | INDEL | D6_15 | map_l125_m2_e1 | het | 57.4870 | 54.9296 | 60.2941 | 93.7672 | 39 | 32 | 41 | 27 | 5 | 18.5185 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 57.4827 | 42.0290 | 90.9091 | 96.2199 | 29 | 40 | 30 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 57.4807 | 40.4480 | 99.2929 | 38.4711 | 957 | 1409 | 983 | 7 | 6 | 85.7143 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 57.4755 | 62.1622 | 53.4460 | 78.1472 | 414 | 252 | 411 | 358 | 355 | 99.1620 | |