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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
21351-21400 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 8.6207 | 4.5455 | 83.3333 | 89.2857 | 2 | 42 | 5 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | map_l100_m1_e0 | het | 14.2857 | 8.6957 | 40.0000 | 95.1456 | 4 | 42 | 4 | 6 | 1 | 16.6667 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.8749 | 91.2134 | 86.6534 | 76.1180 | 436 | 42 | 435 | 67 | 12 | 17.9104 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.9898 | 94.4882 | 95.4967 | 65.8834 | 720 | 42 | 721 | 34 | 23 | 67.6471 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 73.8152 | 89.0909 | 63.0112 | 55.9378 | 343 | 42 | 339 | 199 | 180 | 90.4523 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.5369 | 96.2865 | 98.8203 | 42.9016 | 1089 | 42 | 1089 | 13 | 9 | 69.2308 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.6585 | 93.5681 | 91.7665 | 71.7189 | 611 | 42 | 613 | 55 | 44 | 80.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.4251 | 70.6294 | 96.1165 | 91.5574 | 101 | 42 | 99 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6457 | 99.4290 | 99.8635 | 32.0123 | 7313 | 42 | 7315 | 10 | 4 | 40.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.8196 | 92.1495 | 99.7942 | 70.9504 | 493 | 42 | 485 | 1 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 81.3930 | 81.0811 | 81.7073 | 53.8028 | 180 | 42 | 268 | 60 | 33 | 55.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.2500 | 97.3962 | 99.1189 | 63.9192 | 1571 | 42 | 1575 | 14 | 1 | 7.1429 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.4259 | 96.9186 | 95.9382 | 41.0474 | 1321 | 42 | 12117 | 513 | 483 | 94.1520 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 59.0289 | 42.4658 | 96.7742 | 72.0721 | 31 | 42 | 30 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 43.6519 | 28.8136 | 90.0000 | 80.0000 | 17 | 42 | 18 | 2 | 1 | 50.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5982 | 96.9186 | 98.2874 | 71.4134 | 1321 | 42 | 1320 | 23 | 20 | 86.9565 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.4534 | 76.4045 | 89.5425 | 70.1754 | 136 | 42 | 137 | 16 | 16 | 100.0000 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8309 | 99.3772 | 98.2905 | 53.9062 | 6702 | 42 | 6727 | 117 | 6 | 5.1282 | |
| cchapple-custom | INDEL | I1_5 | HG002compoundhet | het | 97.1579 | 95.0588 | 99.3518 | 64.8409 | 808 | 42 | 13029 | 85 | 74 | 87.0588 | |
| cchapple-custom | SNP | tv | map_l250_m0_e0 | * | 94.5681 | 94.5098 | 94.6265 | 93.8008 | 723 | 42 | 722 | 41 | 8 | 19.5122 | |
| ciseli-custom | INDEL | D1_5 | HG002compoundhet | homalt | 8.4350 | 85.5670 | 4.4361 | 66.5215 | 249 | 42 | 249 | 5364 | 5004 | 93.2886 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 46.1032 | 32.2581 | 80.7692 | 87.0647 | 20 | 42 | 21 | 5 | 5 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1772 | 98.9228 | 99.4328 | 67.8997 | 3857 | 42 | 3857 | 22 | 16 | 72.7273 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m1_e0 | * | 97.1890 | 96.8633 | 97.5169 | 84.0762 | 1297 | 42 | 1296 | 33 | 8 | 24.2424 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e0 | * | 97.2488 | 96.9298 | 97.5700 | 85.3664 | 1326 | 42 | 1325 | 33 | 8 | 24.2424 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m2_e1 | * | 97.3023 | 96.9892 | 97.6173 | 85.4425 | 1353 | 42 | 1352 | 33 | 8 | 24.2424 | |
| ckim-dragen | SNP | ti | map_l250_m0_e0 | het | 95.1974 | 95.5032 | 94.8936 | 94.2165 | 892 | 42 | 892 | 48 | 1 | 2.0833 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.4009 | 91.5493 | 97.4359 | 75.4588 | 455 | 42 | 456 | 12 | 12 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5862 | 99.7647 | 99.4083 | 59.0715 | 17809 | 42 | 17808 | 106 | 7 | 6.6038 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.7759 | 97.0213 | 96.5318 | 75.2636 | 1368 | 42 | 1336 | 48 | 39 | 81.2500 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4732 | 97.1869 | 99.7941 | 31.3060 | 1451 | 42 | 1454 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4718 | 96.8061 | 98.1467 | 52.3196 | 1273 | 42 | 1271 | 24 | 17 | 70.8333 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 85.5522 | 92.4908 | 79.5820 | 75.9660 | 505 | 41 | 495 | 127 | 74 | 58.2677 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 42.6554 | 78.6458 | 29.2636 | 46.1940 | 151 | 41 | 151 | 365 | 351 | 96.1644 | |
| ciseli-custom | INDEL | I16_PLUS | HG002compoundhet | het | 8.3916 | 12.7660 | 6.2500 | 77.0883 | 6 | 41 | 6 | 90 | 75 | 83.3333 | |
| ciseli-custom | INDEL | I16_PLUS | segdup | * | 21.9321 | 12.7660 | 77.7778 | 96.3415 | 6 | 41 | 7 | 2 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | het | 59.3607 | 61.3208 | 57.5221 | 94.3500 | 65 | 41 | 65 | 48 | 38 | 79.1667 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e0 | * | 97.3100 | 97.0029 | 97.6190 | 83.7387 | 1327 | 41 | 1312 | 32 | 10 | 31.2500 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e1 | * | 97.3625 | 97.0609 | 97.6659 | 83.8268 | 1354 | 41 | 1339 | 32 | 10 | 31.2500 | |
| cchapple-custom | INDEL | I1_5 | map_siren | het | 97.7116 | 97.5610 | 97.8628 | 81.6928 | 1640 | 41 | 1740 | 38 | 12 | 31.5789 | |
| ciseli-custom | INDEL | * | func_cds | het | 79.1762 | 80.8411 | 77.5785 | 43.6869 | 173 | 41 | 173 | 50 | 20 | 40.0000 | |
| ciseli-custom | INDEL | * | map_l125_m2_e1 | hetalt | 0.0000 | 4.6512 | 0.0000 | 0.0000 | 2 | 41 | 0 | 0 | 0 | ||
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5410 | 96.4067 | 98.7024 | 79.1406 | 1100 | 41 | 1217 | 16 | 12 | 75.0000 | |
| ckim-dragen | INDEL | I1_5 | map_siren | het | 97.4161 | 97.5610 | 97.2716 | 82.6203 | 1640 | 41 | 1640 | 46 | 8 | 17.3913 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 92.7463 | 87.9765 | 98.0630 | 55.8289 | 300 | 41 | 405 | 8 | 8 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.1337 | 98.6144 | 99.6585 | 48.5413 | 2918 | 41 | 2918 | 10 | 2 | 20.0000 | |
| anovak-vg | INDEL | D1_5 | segdup | het | 93.3306 | 94.0751 | 92.5978 | 95.1126 | 651 | 41 | 663 | 53 | 34 | 64.1509 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 95.7656 | 94.6335 | 96.9251 | 88.4193 | 723 | 41 | 725 | 23 | 3 | 13.0435 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8473 | 94.0320 | 97.7341 | 82.3702 | 646 | 41 | 647 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1904 | 98.9484 | 99.4336 | 67.7810 | 3858 | 41 | 3862 | 22 | 16 | 72.7273 | |