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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68851-68900 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.6192 | 89.9522 | 97.5980 | 66.0369 | 752 | 84 | 772 | 19 | 15 | 78.9474 | |
| cchapple-custom | SNP | tv | map_l250_m2_e0 | het | 94.5749 | 95.6701 | 93.5045 | 91.5751 | 1856 | 84 | 1857 | 129 | 24 | 18.6047 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 2.3256 | 0.0000 | 0.0000 | 2 | 84 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 84 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.6210 | 61.1111 | 78.2353 | 64.0592 | 132 | 84 | 133 | 37 | 35 | 94.5946 | |
| ghariani-varprowl | SNP | ti | map_l150_m0_e0 | homalt | 98.3468 | 96.9576 | 99.7764 | 75.9674 | 2677 | 84 | 2677 | 6 | 4 | 66.6667 | |
| gduggal-snapplat | INDEL | D6_15 | map_siren | homalt | 51.8357 | 35.3846 | 96.8750 | 91.1846 | 46 | 84 | 31 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 50.2132 | 87.3684 | 35.2307 | 72.3584 | 581 | 84 | 588 | 1081 | 1065 | 98.5199 | |
| ghariani-varprowl | INDEL | D1_5 | map_siren | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 84 | 0 | 0 | 0 | |||
| gduggal-snapvard | INDEL | I16_PLUS | map_siren | * | 4.4800 | 2.3256 | 60.8696 | 78.5047 | 2 | 84 | 28 | 18 | 12 | 66.6667 | |
| gduggal-snapfb | INDEL | I6_15 | map_siren | * | 79.8374 | 72.4590 | 88.8889 | 71.7489 | 221 | 84 | 224 | 28 | 26 | 92.8571 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 61.3756 | 98.2368 | 44.6294 | 77.5231 | 4680 | 84 | 4745 | 5887 | 84 | 1.4269 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 85.9520 | 98.7396 | 76.0968 | 60.6268 | 6659 | 85 | 6730 | 2114 | 90 | 4.2573 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 4.4944 | 2.2989 | 100.0000 | 99.9989 | 2 | 85 | 1 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | map_l150_m2_e1 | * | 90.7203 | 94.0931 | 87.5809 | 95.3621 | 1354 | 85 | 1354 | 192 | 56 | 29.1667 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.8841 | 77.2727 | 96.6555 | 54.2813 | 289 | 85 | 289 | 10 | 9 | 90.0000 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.2427 | 99.4993 | 95.0863 | 76.1894 | 16890 | 85 | 16913 | 874 | 433 | 49.5423 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 63.7991 | 90.6900 | 49.2081 | 87.2696 | 828 | 85 | 870 | 898 | 2 | 0.2227 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 70.0566 | 57.5000 | 89.6296 | 82.8897 | 115 | 85 | 121 | 14 | 5 | 35.7143 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 85.9225 | 80.8559 | 91.6667 | 87.7792 | 359 | 85 | 341 | 31 | 12 | 38.7097 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 46.7522 | 70.4861 | 34.9754 | 65.3140 | 203 | 85 | 284 | 528 | 66 | 12.5000 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | het | 97.8706 | 99.5778 | 96.2209 | 80.3517 | 20048 | 85 | 19427 | 763 | 22 | 2.8834 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | het | 97.8792 | 99.5826 | 96.2332 | 80.4169 | 20278 | 85 | 19646 | 769 | 22 | 2.8609 | |
| eyeh-varpipe | SNP | ti | map_l125_m2_e1 | het | 98.9249 | 99.5547 | 98.3030 | 76.7768 | 19002 | 85 | 18595 | 321 | 15 | 4.6729 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | * | 97.1567 | 99.0474 | 95.3368 | 45.3099 | 8838 | 85 | 7176 | 351 | 78 | 22.2222 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e0 | * | 93.9648 | 93.7865 | 94.1438 | 86.6818 | 1283 | 85 | 1270 | 79 | 38 | 48.1013 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 85 | 0 | 0 | 0 | |||
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3194 | 97.8377 | 94.8474 | 67.7840 | 3846 | 85 | 3792 | 206 | 24 | 11.6505 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.9782 | 94.3258 | 99.7842 | 76.6072 | 1413 | 85 | 1387 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 68.2119 | 54.7872 | 90.3509 | 80.9683 | 103 | 85 | 103 | 11 | 10 | 90.9091 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 1.1628 | 0.0000 | 0.0000 | 1 | 85 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 17.9104 | 10.5263 | 60.0000 | 67.7419 | 10 | 85 | 12 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 2.2831 | 1.1628 | 62.5000 | 77.7778 | 1 | 85 | 5 | 3 | 3 | 100.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 1.1628 | 0.0000 | 0.0000 | 1 | 85 | 0 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.0232 | 93.5508 | 94.5004 | 64.2877 | 1233 | 85 | 1220 | 71 | 68 | 95.7746 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.8164 | 89.8325 | 98.1699 | 67.2797 | 751 | 85 | 751 | 14 | 12 | 85.7143 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 49.3151 | 45.8599 | 53.3333 | 66.3342 | 72 | 85 | 72 | 63 | 61 | 96.8254 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.8841 | 77.2727 | 96.6555 | 54.2113 | 289 | 85 | 289 | 10 | 9 | 90.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | hetalt | 85.0270 | 74.6269 | 98.7952 | 62.9464 | 250 | 85 | 246 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 85.2043 | 75.0733 | 98.4962 | 64.0541 | 256 | 85 | 262 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_siren | homalt | 99.8522 | 99.7758 | 99.9287 | 51.0640 | 37831 | 85 | 37826 | 27 | 26 | 96.2963 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5068 | 76.3231 | 97.2028 | 39.0192 | 274 | 85 | 278 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.4946 | 94.4444 | 98.6357 | 82.7265 | 1445 | 85 | 1446 | 20 | 12 | 60.0000 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.4946 | 94.4444 | 98.6357 | 82.7265 | 1445 | 85 | 1446 | 20 | 12 | 60.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 68.8645 | 52.5140 | 100.0000 | 28.5714 | 94 | 85 | 115 | 0 | 0 | ||
| raldana-dualsentieon | SNP | tv | map_l125_m0_e0 | * | 98.7925 | 98.7181 | 98.8671 | 74.3082 | 6546 | 85 | 6545 | 75 | 3 | 4.0000 | |
| raldana-dualsentieon | SNP | tv | map_l150_m1_e0 | het | 98.5915 | 98.7763 | 98.4075 | 76.8439 | 6861 | 85 | 6859 | 111 | 1 | 0.9009 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e0 | het | 98.6373 | 98.8279 | 98.4474 | 78.1985 | 7167 | 85 | 7165 | 113 | 1 | 0.8850 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | het | 98.6349 | 98.8432 | 98.4275 | 78.2306 | 7263 | 85 | 7261 | 116 | 1 | 0.8621 | |