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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60651-60700 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5214 | 99.5507 | 99.4922 | 74.9449 | 5096 | 23 | 5094 | 26 | 13 | 50.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | * | homalt | 99.7512 | 99.9530 | 99.5502 | 62.3527 | 48903 | 23 | 48908 | 221 | 219 | 99.0950 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9281 | 99.3885 | 98.4721 | 71.1857 | 3738 | 23 | 3738 | 58 | 56 | 96.5517 | |
| bgallagher-sentieon | INDEL | I1_5 | map_siren | * | 99.3016 | 99.2346 | 99.3688 | 80.4976 | 2982 | 23 | 2991 | 19 | 5 | 26.3158 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1065 | 97.5584 | 98.6607 | 74.2677 | 919 | 23 | 884 | 12 | 6 | 50.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2546 | 99.1437 | 99.3657 | 50.4529 | 2663 | 23 | 2663 | 17 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | HG002compoundhet | * | 99.7142 | 99.7422 | 99.6862 | 48.7920 | 8900 | 23 | 8895 | 28 | 11 | 39.2857 | |
| bgallagher-sentieon | SNP | tv | map_l100_m0_e0 | homalt | 99.6221 | 99.4020 | 99.8433 | 61.4866 | 3823 | 23 | 3823 | 6 | 4 | 66.6667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e0 | homalt | 94.6004 | 90.4959 | 99.0950 | 89.2457 | 219 | 23 | 219 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 94.7368 | 90.7258 | 99.1189 | 89.1905 | 225 | 23 | 225 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m1_e0 | * | 86.5497 | 86.5497 | 86.5497 | 96.4640 | 148 | 23 | 148 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.3618 | 90.6883 | 96.1977 | 79.5490 | 224 | 23 | 253 | 10 | 6 | 60.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.2626 | 98.6842 | 97.8446 | 62.1511 | 1725 | 23 | 1725 | 38 | 1 | 2.6316 | |
| asubramanian-gatk | SNP | * | map_l125_m1_e0 | hetalt | 37.8378 | 23.3333 | 100.0000 | 93.2692 | 7 | 23 | 7 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l125_m2_e0 | hetalt | 37.8378 | 23.3333 | 100.0000 | 94.6970 | 7 | 23 | 7 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | map_l125_m2_e1 | hetalt | 37.8378 | 23.3333 | 100.0000 | 94.6970 | 7 | 23 | 7 | 0 | 0 | ||
| anovak-vg | INDEL | * | tech_badpromoters | het | 55.6267 | 41.0256 | 86.3636 | 38.8889 | 16 | 23 | 19 | 3 | 3 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_l100_m1_e0 | het | 63.2911 | 50.0000 | 86.2069 | 85.6436 | 23 | 23 | 25 | 4 | 3 | 75.0000 | |
| anovak-vg | INDEL | D1_5 | map_l250_m1_e0 | homalt | 73.0707 | 59.6491 | 94.2857 | 96.1957 | 34 | 23 | 33 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l250_m2_e0 | het | 72.6137 | 80.9917 | 65.8065 | 96.1529 | 98 | 23 | 102 | 53 | 22 | 41.5094 | |
| anovak-vg | INDEL | D1_5 | map_l250_m2_e0 | homalt | 74.7056 | 61.6667 | 94.7368 | 96.3844 | 37 | 23 | 36 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | map_l250_m2_e1 | het | 72.2986 | 81.1475 | 65.1899 | 96.1529 | 99 | 23 | 103 | 55 | 22 | 40.0000 | |
| anovak-vg | INDEL | D1_5 | map_l250_m2_e1 | homalt | 74.7056 | 61.6667 | 94.7368 | 96.4912 | 37 | 23 | 36 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 23 | 0 | 0 | 0 | |||
| astatham-gatk | INDEL | D16_PLUS | HG002complexvar | hetalt | 93.7269 | 90.6883 | 96.9762 | 47.9190 | 224 | 23 | 449 | 14 | 14 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 95.4352 | 95.2282 | 95.6432 | 90.0310 | 459 | 23 | 461 | 21 | 3 | 14.2857 | |
| astatham-gatk | INDEL | I16_PLUS | HG002complexvar | * | 98.7711 | 98.2429 | 99.3050 | 67.4541 | 1286 | 23 | 1286 | 9 | 9 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1602 | 97.5584 | 98.7696 | 74.4425 | 919 | 23 | 883 | 11 | 5 | 45.4545 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1039 | 98.4828 | 99.7328 | 68.8838 | 1493 | 23 | 1493 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m0_e0 | homalt | 95.4296 | 91.9014 | 99.2395 | 89.4122 | 261 | 23 | 261 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.1647 | 97.6017 | 98.7342 | 72.8055 | 936 | 23 | 936 | 12 | 8 | 66.6667 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 12.7389 | 8.0000 | 31.2500 | 63.6364 | 2 | 23 | 5 | 11 | 11 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5798 | 99.5507 | 99.6089 | 75.0780 | 5096 | 23 | 5094 | 20 | 10 | 50.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.9960 | 97.6240 | 96.3760 | 83.1102 | 945 | 23 | 851 | 32 | 22 | 68.7500 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 73.0417 | 73.5632 | 72.5275 | 81.8363 | 64 | 23 | 66 | 25 | 17 | 68.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l150_m2_e0 | * | 91.6113 | 96.9856 | 86.8014 | 90.8198 | 740 | 23 | 730 | 111 | 13 | 11.7117 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 64.2663 | 78.7037 | 54.3046 | 76.0317 | 85 | 23 | 82 | 69 | 42 | 60.8696 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 23 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 23 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | I1_5 | map_l100_m1_e0 | homalt | 97.3420 | 95.5598 | 99.1919 | 72.4388 | 495 | 23 | 491 | 4 | 2 | 50.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m1_e0 | * | 93.8317 | 95.4545 | 92.2631 | 90.7131 | 483 | 23 | 477 | 40 | 14 | 35.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e0 | * | 93.9848 | 95.5684 | 92.4528 | 91.6272 | 496 | 23 | 490 | 40 | 14 | 35.0000 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e0 | het | 90.1205 | 89.0476 | 91.2195 | 94.6489 | 187 | 23 | 187 | 18 | 3 | 16.6667 | |
| gduggal-snapfb | INDEL | * | map_l250_m2_e1 | het | 90.1679 | 89.0995 | 91.2621 | 94.7636 | 188 | 23 | 188 | 18 | 3 | 16.6667 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 71.8580 | 58.1818 | 93.9394 | 76.9231 | 32 | 23 | 31 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l125_m1_e0 | het | 78.0952 | 64.0625 | 100.0000 | 96.9675 | 41 | 23 | 41 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 83.7745 | 72.9412 | 98.3871 | 66.6667 | 62 | 23 | 61 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | map_siren | homalt | 83.7500 | 74.4444 | 95.7143 | 85.5372 | 67 | 23 | 67 | 3 | 3 | 100.0000 | |