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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49301-49350 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | I16_PLUS | map_siren | het | 44.4444 | 28.5714 | 100.0000 | 92.6702 | 14 | 35 | 14 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 44.4444 | 28.9157 | 96.0000 | 59.6774 | 24 | 59 | 24 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | map_l250_m1_e0 | * | 44.4444 | 28.5714 | 100.0000 | 99.3750 | 2 | 5 | 2 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 44.4444 | 29.6296 | 88.8889 | 99.4278 | 8 | 19 | 8 | 1 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 44.4444 | 30.7692 | 80.0000 | 37.5000 | 4 | 9 | 4 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l250_m1_e0 | het | 44.4444 | 66.6667 | 33.3333 | 97.1292 | 2 | 1 | 2 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l250_m2_e0 | het | 44.4444 | 66.6667 | 33.3333 | 97.4895 | 2 | 1 | 2 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l250_m2_e1 | het | 44.4444 | 66.6667 | 33.3333 | 97.5207 | 2 | 1 | 2 | 4 | 1 | 25.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | map_l125_m0_e0 | * | 44.4444 | 33.3333 | 66.6667 | 88.0000 | 2 | 4 | 2 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I6_15 | * | het | 44.4423 | 31.4363 | 75.8046 | 53.6729 | 3154 | 6879 | 3227 | 1030 | 925 | 89.8058 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 44.4394 | 41.1352 | 48.3208 | 59.7393 | 7269 | 10402 | 7223 | 7725 | 7546 | 97.6828 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 44.4394 | 41.1352 | 48.3208 | 59.7393 | 7269 | 10402 | 7223 | 7725 | 7546 | 97.6828 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.4338 | 30.6874 | 80.4889 | 73.3333 | 1759 | 3973 | 1745 | 423 | 294 | 69.5035 | |
| anovak-vg | INDEL | I6_15 | * | * | 44.4248 | 38.7222 | 52.0973 | 38.6048 | 9612 | 15211 | 9514 | 8748 | 6474 | 74.0055 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | * | 44.4193 | 40.7689 | 48.7878 | 63.5182 | 5037 | 7318 | 5393 | 5661 | 4783 | 84.4904 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.3676 | 44.4859 | 44.2500 | 32.4739 | 1073 | 1339 | 1947 | 2453 | 2342 | 95.4749 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.3448 | 92.6829 | 29.1447 | 34.4863 | 456 | 36 | 552 | 1342 | 1201 | 89.4933 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e1 | het | 44.3378 | 34.4262 | 62.2642 | 83.5913 | 21 | 40 | 33 | 20 | 5 | 25.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.3323 | 30.1494 | 83.7121 | 76.2590 | 666 | 1543 | 663 | 129 | 106 | 82.1705 | |
| gduggal-snapplat | INDEL | D6_15 | HG002complexvar | * | 44.3210 | 31.1015 | 77.0858 | 66.5750 | 1649 | 3653 | 1312 | 390 | 129 | 33.0769 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 44.3050 | 88.6576 | 29.5314 | 54.8186 | 852 | 109 | 857 | 2045 | 2032 | 99.3643 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 44.3038 | 55.5556 | 36.8421 | 58.6957 | 5 | 4 | 7 | 12 | 7 | 58.3333 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 44.2793 | 38.8052 | 51.5516 | 63.0411 | 1546 | 2438 | 1545 | 1452 | 1385 | 95.3857 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 44.2791 | 62.9630 | 34.1463 | 81.0185 | 17 | 10 | 14 | 27 | 16 | 59.2593 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 44.2731 | 30.1494 | 83.2915 | 76.5745 | 666 | 1543 | 663 | 133 | 106 | 79.6992 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 44.2331 | 96.9758 | 28.6507 | 74.2013 | 962 | 30 | 981 | 2443 | 19 | 0.7777 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.2166 | 52.6316 | 38.1215 | 75.7697 | 70 | 63 | 69 | 112 | 110 | 98.2143 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.1953 | 30.1465 | 82.7653 | 67.2461 | 1728 | 4004 | 1700 | 354 | 318 | 89.8305 | |
| eyeh-varpipe | INDEL | I16_PLUS | map_siren | * | 44.1848 | 30.2326 | 82.0513 | 68.0328 | 26 | 60 | 32 | 7 | 7 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | het | 44.1840 | 28.4887 | 98.3906 | 67.8462 | 2262 | 5678 | 2262 | 37 | 3 | 8.1081 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 44.1767 | 33.5366 | 64.7059 | 59.2000 | 55 | 109 | 66 | 36 | 29 | 80.5556 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 44.1721 | 50.3828 | 39.3245 | 62.5903 | 329 | 324 | 326 | 503 | 469 | 93.2406 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m2_e0 | * | 44.1674 | 34.4444 | 61.5385 | 89.4737 | 31 | 59 | 32 | 20 | 14 | 70.0000 | |
| asubramanian-gatk | SNP | ti | map_l150_m2_e1 | het | 44.1440 | 28.3519 | 99.6487 | 94.9230 | 3690 | 9325 | 3688 | 13 | 5 | 38.4615 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 44.1354 | 31.4607 | 73.9130 | 57.1429 | 28 | 61 | 51 | 18 | 18 | 100.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 44.1195 | 41.2053 | 47.4772 | 55.2735 | 1094 | 1561 | 1355 | 1499 | 1289 | 85.9907 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 44.1176 | 30.0000 | 83.3333 | 99.9060 | 6 | 14 | 5 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 44.1176 | 75.0000 | 31.2500 | 71.9298 | 6 | 2 | 5 | 11 | 11 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 44.1057 | 39.2068 | 50.4037 | 54.9961 | 1562 | 2422 | 1748 | 1720 | 1273 | 74.0116 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 44.1015 | 42.1796 | 46.2069 | 48.7496 | 2241 | 3072 | 3551 | 4134 | 3627 | 87.7358 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 44.0797 | 45.6816 | 42.5864 | 46.2713 | 439 | 522 | 764 | 1030 | 885 | 85.9223 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l250_m2_e1 | homalt | 44.0678 | 28.2609 | 100.0000 | 98.6762 | 13 | 33 | 13 | 0 | 0 | ||
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 44.0640 | 31.3725 | 74.0000 | 55.3571 | 32 | 70 | 37 | 13 | 12 | 92.3077 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 44.0541 | 41.4041 | 47.0666 | 44.8610 | 3916 | 5542 | 3939 | 4430 | 3649 | 82.3702 | |
| gduggal-snapplat | INDEL | D6_15 | map_l100_m2_e0 | het | 44.0534 | 31.2977 | 74.3590 | 93.8389 | 41 | 90 | 29 | 10 | 1 | 10.0000 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 44.0468 | 83.2421 | 29.9463 | 79.5867 | 760 | 153 | 781 | 1827 | 29 | 1.5873 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 44.0360 | 38.0774 | 52.2053 | 83.4017 | 11606 | 18874 | 14180 | 12982 | 2052 | 15.8065 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 44.0199 | 83.7017 | 29.8625 | 62.4216 | 303 | 59 | 304 | 714 | 698 | 97.7591 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 44.0143 | 35.8696 | 56.9444 | 58.6207 | 33 | 59 | 41 | 31 | 27 | 87.0968 | |