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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12601-12650 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 35.3007 | 32.2054 | 39.0543 | 51.0895 | 3569 | 7513 | 3568 | 5568 | 5531 | 99.3355 | |
| ckim-vqsr | INDEL | * | map_l100_m2_e0 | * | 97.1833 | 96.6423 | 97.7304 | 89.4395 | 3569 | 124 | 3574 | 83 | 16 | 19.2771 | |
| anovak-vg | INDEL | D6_15 | HG002complexvar | * | 72.7472 | 67.2954 | 79.1602 | 52.2024 | 3568 | 1734 | 3582 | 943 | 676 | 71.6861 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.6406 | 93.7451 | 99.7207 | 30.0781 | 3567 | 238 | 3570 | 10 | 10 | 100.0000 | |
| jmaeng-gatk | SNP | tv | map_l125_m1_e0 | homalt | 75.6286 | 60.8191 | 99.9719 | 74.7843 | 3564 | 2296 | 3564 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.7998 | 77.2097 | 99.1101 | 56.3009 | 3564 | 1052 | 3564 | 32 | 5 | 15.6250 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | * | 95.9812 | 96.4527 | 95.5142 | 84.7037 | 3562 | 131 | 3641 | 171 | 49 | 28.6550 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | homalt | 75.5546 | 60.7338 | 99.9438 | 75.6613 | 3559 | 2301 | 3559 | 2 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l100_m2_e0 | * | 97.6394 | 96.3174 | 98.9983 | 79.7338 | 3557 | 136 | 3558 | 36 | 6 | 16.6667 | |
| ghariani-varprowl | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.3707 | 87.9455 | 41.4787 | 65.8135 | 3553 | 487 | 3568 | 5034 | 4915 | 97.6361 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 92.8504 | 88.1608 | 98.0670 | 34.4871 | 3552 | 477 | 1522 | 30 | 30 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 86.5391 | 76.3934 | 99.7924 | 26.7984 | 3550 | 1097 | 1442 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.7883 | 91.0957 | 96.6448 | 54.7687 | 3550 | 347 | 3543 | 123 | 90 | 73.1707 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 81.1499 | 74.3504 | 89.3182 | 33.8346 | 3548 | 1224 | 393 | 47 | 47 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.5901 | 96.7267 | 96.4539 | 49.3016 | 3546 | 120 | 3536 | 130 | 124 | 95.3846 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e0 | homalt | 55.5756 | 38.4849 | 99.9718 | 81.4225 | 3546 | 5668 | 3546 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.2951 | 97.8471 | 98.7472 | 84.7253 | 3545 | 78 | 3547 | 45 | 27 | 60.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.9814 | 83.6479 | 76.6228 | 91.4225 | 3545 | 693 | 3553 | 1084 | 49 | 4.5203 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | homalt | 64.9030 | 58.3635 | 73.0928 | 57.1933 | 3545 | 2529 | 3545 | 1305 | 1228 | 94.0996 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.4318 | 96.0944 | 92.8258 | 50.7186 | 3543 | 144 | 3597 | 278 | 63 | 22.6619 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.4344 | 93.1143 | 100.0000 | 27.8227 | 3543 | 262 | 3567 | 0 | 0 | ||
| ckim-isaac | SNP | ti | map_l150_m1_e0 | homalt | 65.1458 | 48.3281 | 99.9153 | 66.1412 | 3541 | 3786 | 3541 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2071 | 90.0993 | 98.7075 | 49.5392 | 3540 | 389 | 3513 | 46 | 33 | 71.7391 | |
| bgallagher-sentieon | INDEL | * | map_l100_m1_e0 | * | 98.3343 | 98.6615 | 98.0094 | 85.1549 | 3538 | 48 | 3545 | 72 | 17 | 23.6111 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 40.2625 | 37.4075 | 43.5894 | 47.0109 | 3538 | 5920 | 3512 | 4545 | 4494 | 98.8779 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | hetalt | 97.6611 | 95.6475 | 99.7614 | 69.0744 | 3538 | 161 | 3763 | 9 | 8 | 88.8889 | |
| gduggal-snapplat | SNP | tv | map_l150_m2_e1 | homalt | 92.2034 | 85.5346 | 100.0000 | 76.0404 | 3536 | 598 | 3535 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1272 | 97.5987 | 98.6615 | 84.6994 | 3536 | 87 | 3538 | 48 | 30 | 62.5000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 94.3311 | 97.1963 | 91.6300 | 59.5874 | 3536 | 102 | 3536 | 323 | 127 | 39.3189 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e1 | het | 50.1525 | 33.4976 | 99.7460 | 93.1412 | 3535 | 7018 | 3534 | 9 | 2 | 22.2222 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2414 | 99.9435 | 98.5491 | 72.6182 | 3535 | 2 | 3532 | 52 | 52 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.5535 | 97.1688 | 93.9910 | 58.3407 | 3535 | 103 | 3535 | 226 | 68 | 30.0885 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.5568 | 89.9466 | 95.3230 | 44.4415 | 3534 | 395 | 3954 | 194 | 181 | 93.2990 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2944 | 92.8778 | 99.9719 | 25.4138 | 3534 | 271 | 3559 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5071 | 99.8869 | 99.1302 | 72.7419 | 3533 | 4 | 3533 | 31 | 31 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5071 | 99.8869 | 99.1302 | 72.8167 | 3533 | 4 | 3533 | 31 | 31 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.2834 | 99.8869 | 98.6872 | 72.6216 | 3533 | 4 | 3533 | 47 | 47 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4789 | 99.8586 | 99.1021 | 72.7252 | 3532 | 5 | 3532 | 32 | 32 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5913 | 99.8586 | 99.3255 | 71.8824 | 3532 | 5 | 3534 | 24 | 24 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5070 | 99.8586 | 99.1578 | 72.7530 | 3532 | 5 | 3532 | 30 | 30 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2661 | 92.8252 | 99.9719 | 25.4244 | 3532 | 273 | 3557 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 93.0591 | 87.6396 | 99.1931 | 21.1150 | 3531 | 498 | 3565 | 29 | 24 | 82.7586 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3948 | 99.8304 | 98.9630 | 72.1359 | 3531 | 6 | 3531 | 37 | 37 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4228 | 99.8304 | 99.0185 | 72.8574 | 3531 | 6 | 3531 | 35 | 34 | 97.1429 | |
| gduggal-bwafb | INDEL | * | map_l100_m2_e1 | * | 96.0874 | 94.0096 | 98.2592 | 84.3618 | 3531 | 225 | 3556 | 63 | 22 | 34.9206 | |
| gduggal-bwaplat | INDEL | * | map_siren | het | 87.4010 | 78.3274 | 98.8522 | 90.8215 | 3531 | 977 | 3531 | 41 | 15 | 36.5854 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 91.3183 | 97.0313 | 86.2405 | 69.6055 | 3530 | 108 | 3535 | 564 | 553 | 98.0496 | |
| hfeng-pmm2 | INDEL | * | HG002complexvar | hetalt | 97.5479 | 95.4312 | 99.7606 | 69.1784 | 3530 | 169 | 3750 | 9 | 7 | 77.7778 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | * | 98.3031 | 98.4384 | 98.1682 | 84.3925 | 3530 | 56 | 3537 | 66 | 13 | 19.6970 | |
| ckim-gatk | INDEL | * | map_l100_m1_e0 | * | 97.0622 | 98.4384 | 95.7240 | 88.3725 | 3530 | 56 | 3537 | 158 | 20 | 12.6582 | |