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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
61301-61350 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.1489 | 92.9019 | 99.6311 | 33.4986 | 13036 | 996 | 13232 | 49 | 48 | 97.9592 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.1492 | 94.2273 | 98.1512 | 80.5335 | 3689 | 226 | 3610 | 68 | 32 | 47.0588 | |
| jpowers-varprowl | SNP | ti | map_l150_m0_e0 | * | 96.1494 | 95.2932 | 97.0211 | 84.0052 | 7491 | 370 | 7491 | 230 | 86 | 37.3913 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1506 | 93.3555 | 99.1182 | 52.8678 | 562 | 40 | 562 | 5 | 4 | 80.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1507 | 97.5083 | 94.8304 | 50.6380 | 587 | 15 | 587 | 32 | 31 | 96.8750 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 96.1516 | 93.6330 | 98.8095 | 54.5946 | 250 | 17 | 249 | 3 | 1 | 33.3333 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.1521 | 99.7642 | 92.7925 | 63.8373 | 2538 | 6 | 2459 | 191 | 10 | 5.2356 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m1_e0 | * | 96.1525 | 97.2426 | 95.0864 | 84.7784 | 1058 | 30 | 1045 | 54 | 6 | 11.1111 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.1530 | 92.6221 | 99.9638 | 35.0611 | 5461 | 435 | 5523 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.1530 | 92.6221 | 99.9638 | 35.0611 | 5461 | 435 | 5523 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.1875 | 25 | 2 | 20 | 0 | 0 | ||
| ckim-vqsr | INDEL | I6_15 | map_l150_m2_e1 | * | 96.1538 | 92.5926 | 100.0000 | 96.5847 | 25 | 2 | 25 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.3944 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1538 | 100.0000 | 92.5926 | 92.7224 | 25 | 0 | 25 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | map_l150_m1_e0 | homalt | 96.1538 | 96.1538 | 96.1538 | 88.2883 | 25 | 1 | 25 | 1 | 1 | 100.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 96.1538 | 92.5926 | 100.0000 | 97.8411 | 25 | 2 | 25 | 0 | 0 | ||
| dgrover-gatk | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.4051 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.4528 | 25 | 2 | 20 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 91.4961 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l150_m1_e0 | homalt | 96.1538 | 96.1538 | 96.1538 | 88.9831 | 25 | 1 | 25 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.2481 | 25 | 2 | 20 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 96.1538 | 92.5926 | 100.0000 | 97.7457 | 25 | 2 | 25 | 0 | 0 | ||
| astatham-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 96.1538 | 97.0874 | 95.2381 | 90.1961 | 100 | 3 | 100 | 5 | 1 | 20.0000 | |
| astatham-gatk | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.3513 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1538 | 100.0000 | 92.5926 | 92.8191 | 25 | 0 | 25 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.2481 | 25 | 2 | 20 | 0 | 0 | ||
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 96.1538 | 92.5926 | 100.0000 | 97.7558 | 25 | 2 | 25 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.2747 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 96.1538 | 92.5926 | 100.0000 | 97.7252 | 25 | 2 | 25 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.2967 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.1538 | 98.0392 | 94.3396 | 51.5982 | 100 | 2 | 100 | 6 | 5 | 83.3333 | |
| ckim-gatk | INDEL | D6_15 | segdup | homalt | 96.1538 | 100.0000 | 92.5926 | 92.3944 | 50 | 0 | 50 | 4 | 4 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1538 | 100.0000 | 92.5926 | 92.7224 | 25 | 0 | 25 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.1875 | 25 | 2 | 20 | 0 | 0 | ||
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1538 | 100.0000 | 92.5926 | 92.0118 | 25 | 0 | 25 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 92.3077 | 25 | 2 | 20 | 0 | 0 | ||
| jli-custom | INDEL | D6_15 | map_l100_m0_e0 | * | 96.1538 | 97.0874 | 95.2381 | 87.4702 | 100 | 3 | 100 | 5 | 1 | 20.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.1538 | 92.5926 | 100.0000 | 78.0702 | 75 | 6 | 75 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1540 | 92.9308 | 99.6088 | 28.2869 | 12791 | 973 | 12985 | 51 | 51 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | * | hetalt | 96.1547 | 93.1490 | 99.3609 | 40.3300 | 7614 | 560 | 7618 | 49 | 49 | 100.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.1549 | 98.4124 | 93.9987 | 87.3444 | 8988 | 145 | 9022 | 576 | 32 | 5.5556 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.1549 | 98.4124 | 93.9987 | 87.3444 | 8988 | 145 | 9022 | 576 | 32 | 5.5556 | |
| cchapple-custom | INDEL | I6_15 | HG002compoundhet | het | 96.1554 | 93.2692 | 99.2258 | 33.4003 | 194 | 14 | 9869 | 77 | 72 | 93.5065 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e0 | het | 96.1556 | 94.6801 | 97.6778 | 86.3185 | 1317 | 74 | 1346 | 32 | 2 | 6.2500 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.1564 | 94.7368 | 97.6190 | 90.9968 | 90 | 5 | 82 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.1564 | 94.7368 | 97.6190 | 90.9968 | 90 | 5 | 82 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.1564 | 94.7368 | 97.6190 | 90.8795 | 90 | 5 | 82 | 2 | 0 | 0.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.1564 | 95.4426 | 96.8811 | 68.1564 | 2534 | 121 | 2485 | 80 | 69 | 86.2500 | |
| gduggal-snapfb | INDEL | * | map_l150_m1_e0 | homalt | 96.1581 | 94.8052 | 97.5501 | 91.6231 | 438 | 24 | 438 | 11 | 8 | 72.7273 | |