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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61251-61300 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 78.8022 | 96.7658 | 66.4639 | 76.6264 | 748 | 25 | 874 | 441 | 259 | 58.7302 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 80.5518 | 94.6809 | 70.0921 | 54.5132 | 445 | 25 | 989 | 422 | 322 | 76.3033 | |
| gduggal-snapvard | INDEL | I6_15 | HG002compoundhet | homalt | 31.1688 | 19.3548 | 80.0000 | 52.3810 | 6 | 25 | 8 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 38.4615 | 28.5714 | 58.8235 | 98.1006 | 10 | 25 | 10 | 7 | 4 | 57.1429 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 50.0000 | 39.0244 | 69.5652 | 97.8976 | 16 | 25 | 16 | 7 | 2 | 28.5714 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 25 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 25 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 50.0921 | 84.4720 | 35.6021 | 27.7883 | 136 | 25 | 136 | 246 | 246 | 100.0000 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 25 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 90.8187 | 92.0128 | 89.6552 | 50.4274 | 288 | 25 | 156 | 18 | 14 | 77.7778 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 44.0000 | 30.5556 | 78.5714 | 62.1622 | 11 | 25 | 11 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.1553 | 85.1190 | 68.8995 | 75.1486 | 143 | 25 | 144 | 65 | 61 | 93.8462 | |
| ghariani-varprowl | INDEL | I6_15 | map_siren | homalt | 81.7610 | 72.2222 | 94.2029 | 76.1246 | 65 | 25 | 65 | 4 | 3 | 75.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7848 | 99.4179 | 94.2876 | 66.3675 | 4270 | 25 | 4275 | 259 | 18 | 6.9498 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4797 | 98.7648 | 86.9467 | 79.4810 | 1999 | 25 | 1925 | 289 | 9 | 3.1142 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7770 | 94.3694 | 82.0455 | 74.5958 | 419 | 25 | 361 | 79 | 28 | 35.4430 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0184 | 98.5852 | 97.4582 | 45.8333 | 1742 | 25 | 1457 | 38 | 11 | 28.9474 | |
| eyeh-varpipe | SNP | tv | map_l125_m0_e0 | * | 96.4575 | 99.6230 | 93.4869 | 79.0795 | 6606 | 25 | 6574 | 458 | 11 | 2.4018 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 86.1043 | 94.9187 | 78.7879 | 57.8125 | 467 | 25 | 468 | 126 | 118 | 93.6508 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e1 | homalt | 98.4321 | 98.0484 | 98.8189 | 84.9917 | 1256 | 25 | 1255 | 15 | 13 | 86.6667 | |
| gduggal-bwafb | INDEL | * | map_l150_m0_e0 | * | 96.0765 | 95.1362 | 97.0356 | 91.6003 | 489 | 25 | 491 | 15 | 3 | 20.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 80.3613 | 90.7407 | 72.1127 | 50.6259 | 245 | 25 | 256 | 99 | 99 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l100_m0_e0 | het | 87.7147 | 97.5514 | 79.6800 | 90.8905 | 996 | 25 | 996 | 254 | 63 | 24.8031 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 25 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m1_e0 | hetalt | 0.0000 | 3.8462 | 0.0000 | 0.0000 | 1 | 25 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D16_PLUS | map_l100_m2_e0 | hetalt | 0.0000 | 3.8462 | 0.0000 | 0.0000 | 1 | 25 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | map_l150_m2_e1 | * | 91.5776 | 96.7866 | 86.9006 | 90.8380 | 753 | 25 | 743 | 112 | 14 | 12.5000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 60.5578 | 44.4444 | 95.0000 | 68.2540 | 20 | 25 | 19 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 59.4214 | 43.1818 | 95.2381 | 93.9481 | 19 | 25 | 20 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 88.8877 | 89.1304 | 88.6463 | 58.2878 | 205 | 25 | 203 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l125_m1_e0 | * | 97.7461 | 97.7022 | 97.7901 | 86.2288 | 1063 | 25 | 1062 | 24 | 2 | 8.3333 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 58.8235 | 44.4444 | 86.9565 | 67.1429 | 20 | 25 | 20 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | segdup | * | 98.1968 | 97.6393 | 98.7607 | 94.3611 | 1034 | 25 | 1036 | 13 | 6 | 46.1538 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6891 | 99.7744 | 99.6038 | 58.0494 | 11059 | 25 | 11062 | 44 | 20 | 45.4545 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7040 | 99.5894 | 99.8189 | 55.7321 | 6063 | 25 | 6063 | 11 | 10 | 90.9091 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 62.8571 | 46.8085 | 95.6522 | 83.6879 | 22 | 25 | 22 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4977 | 97.4798 | 88.0000 | 79.7980 | 967 | 25 | 968 | 132 | 9 | 6.8182 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8593 | 98.3311 | 99.3931 | 83.7319 | 1473 | 25 | 1474 | 9 | 6 | 66.6667 | |
| gduggal-bwafb | SNP | tv | map_l250_m0_e0 | het | 96.0492 | 95.6294 | 96.4727 | 93.2955 | 547 | 25 | 547 | 20 | 5 | 25.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e0 | homalt | 97.2112 | 95.2919 | 99.2095 | 74.5984 | 506 | 25 | 502 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e1 | homalt | 97.2587 | 95.3704 | 99.2233 | 74.6305 | 515 | 25 | 511 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e1 | * | 93.8347 | 95.2919 | 92.4214 | 91.6756 | 506 | 25 | 500 | 41 | 15 | 36.5854 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 65.2610 | 83.5526 | 53.5398 | 93.1390 | 127 | 25 | 121 | 105 | 14 | 13.3333 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.2250 | 97.0760 | 91.5367 | 74.6113 | 830 | 25 | 822 | 76 | 8 | 10.5263 | |
| gduggal-bwavard | SNP | tv | map_l250_m1_e0 | homalt | 98.1672 | 97.0794 | 99.2797 | 87.2766 | 831 | 25 | 827 | 6 | 4 | 66.6667 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 100.0000 | 0 | 25 | 0 | 0 | 0 | ||||
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.5998 | 99.7544 | 99.4458 | 51.6487 | 10153 | 25 | 10587 | 59 | 58 | 98.3051 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m0_e0 | * | 97.2110 | 97.1031 | 97.3190 | 85.5164 | 838 | 25 | 1089 | 30 | 15 | 50.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 42.7673 | 28.5714 | 85.0000 | 56.5217 | 10 | 25 | 17 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 42.3430 | 32.4324 | 60.9756 | 37.4046 | 12 | 25 | 50 | 32 | 32 | 100.0000 | |