PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
22001-22050 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.9381 | 98.9362 | 93.1164 | 62.2579 | 744 | 8 | 744 | 55 | 55 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.5292 | 744 | 8 | 744 | 59 | 59 | 100.0000 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e1 | homalt | 97.1279 | 96.1240 | 98.1530 | 89.6772 | 744 | 30 | 744 | 14 | 9 | 64.2857 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e0 | het | 97.6378 | 97.3822 | 97.8947 | 85.3565 | 744 | 20 | 744 | 16 | 4 | 25.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l150_m2_e0 | * | 97.9592 | 97.5098 | 98.4127 | 88.2536 | 744 | 19 | 744 | 12 | 5 | 41.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6298 | 98.9362 | 92.5373 | 61.3647 | 744 | 8 | 744 | 60 | 60 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7499 | 93.8209 | 99.8677 | 23.9437 | 744 | 49 | 755 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m2_e0 | * | 97.8940 | 97.3788 | 98.4148 | 87.6287 | 743 | 20 | 745 | 12 | 3 | 25.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8920 | 97.5066 | 98.2804 | 67.0301 | 743 | 19 | 743 | 13 | 7 | 53.8462 | |
| dgrover-gatk | SNP | tv | map_l250_m0_e0 | * | 96.9974 | 97.1242 | 96.8709 | 93.8566 | 743 | 22 | 743 | 24 | 4 | 16.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | het | 89.4149 | 87.4118 | 91.5119 | 86.7066 | 743 | 107 | 690 | 64 | 62 | 96.8750 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 71.4799 | 62.8596 | 82.8402 | 34.4961 | 743 | 439 | 140 | 29 | 29 | 100.0000 | |
| ghariani-varprowl | INDEL | D1_5 | map_l150_m2_e1 | * | 90.5545 | 95.5013 | 86.0950 | 91.3170 | 743 | 35 | 743 | 120 | 22 | 18.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8275 | 97.5066 | 98.1506 | 66.5044 | 743 | 19 | 743 | 14 | 8 | 57.1429 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.3738 | 93.6948 | 99.2105 | 23.7713 | 743 | 50 | 754 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.1877 | 98.8032 | 95.6242 | 60.3774 | 743 | 9 | 743 | 34 | 34 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l150_m2_e0 | * | 97.3150 | 97.3788 | 97.2513 | 89.0482 | 743 | 20 | 743 | 21 | 3 | 14.2857 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | hetalt | 82.1814 | 73.2478 | 93.5968 | 47.9210 | 742 | 271 | 1184 | 81 | 69 | 85.1852 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | homalt | 96.9360 | 97.2477 | 96.6263 | 87.0809 | 742 | 21 | 1117 | 39 | 35 | 89.7436 | |
| cchapple-custom | INDEL | * | map_l125_m2_e0 | homalt | 98.2786 | 97.2477 | 99.3316 | 84.9709 | 742 | 21 | 743 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.2224 | 98.6702 | 93.8931 | 48.2213 | 742 | 10 | 738 | 48 | 41 | 85.4167 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.2781 | 97.3753 | 99.1979 | 63.8123 | 742 | 20 | 742 | 6 | 1 | 16.6667 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1481 | 97.3753 | 98.9333 | 63.7506 | 742 | 20 | 742 | 8 | 4 | 50.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8892 | 97.3753 | 98.4085 | 66.7402 | 742 | 20 | 742 | 12 | 7 | 58.3333 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 94.5153 | 0.0000 | 0.0000 | 741 | 43 | 0 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8218 | 97.2441 | 98.4064 | 67.2181 | 741 | 21 | 741 | 12 | 7 | 58.3333 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.9511 | 97.2441 | 98.6684 | 67.2767 | 741 | 21 | 741 | 10 | 7 | 70.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m2_e1 | het | 97.6297 | 96.2338 | 99.0667 | 83.9125 | 741 | 29 | 743 | 7 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.8828 | 94.3878 | 99.5134 | 33.1707 | 740 | 44 | 818 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.2084 | 97.1129 | 99.3289 | 64.2343 | 740 | 22 | 740 | 5 | 1 | 20.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1453 | 97.1129 | 99.2000 | 58.1707 | 740 | 22 | 744 | 6 | 4 | 66.6667 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8131 | 97.1129 | 98.5235 | 67.3246 | 740 | 22 | 734 | 11 | 10 | 90.9091 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 60.4796 | 98.4043 | 43.6551 | 42.6260 | 740 | 12 | 805 | 1039 | 978 | 94.1290 | |
| 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-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 70.7005 | 95.7309 | 56.0463 | 69.8866 | 740 | 33 | 774 | 607 | 47 | 7.7430 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | het | 67.5834 | 52.5568 | 94.6429 | 82.8559 | 740 | 668 | 742 | 42 | 17 | 40.4762 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e0 | het | 97.9502 | 96.8586 | 99.0667 | 78.0059 | 740 | 24 | 743 | 7 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | HG002complexvar | * | 64.1165 | 56.5317 | 74.0519 | 63.2294 | 740 | 569 | 742 | 260 | 258 | 99.2308 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 22.1585 | 18.8343 | 26.9076 | 54.2967 | 740 | 3189 | 737 | 2002 | 1995 | 99.6503 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e0 | het | 93.9573 | 93.1904 | 94.7368 | 87.3601 | 739 | 54 | 738 | 41 | 29 | 70.7317 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8808 | 96.9816 | 98.7968 | 67.2217 | 739 | 23 | 739 | 9 | 5 | 55.5556 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 70.4260 | 57.0216 | 92.0694 | 94.2733 | 739 | 557 | 743 | 64 | 15 | 23.4375 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 95.7666 | 96.8545 | 94.7028 | 87.9645 | 739 | 24 | 733 | 41 | 6 | 14.6341 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m2_e0 | * | 98.0117 | 96.8545 | 99.1968 | 86.8347 | 739 | 24 | 741 | 6 | 1 | 16.6667 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.2713 | 96.9816 | 99.5957 | 64.0330 | 739 | 23 | 739 | 3 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | * | 89.3051 | 96.6013 | 83.0337 | 95.8027 | 739 | 26 | 739 | 151 | 9 | 5.9603 | |
| raldana-dualsentieon | SNP | tv | map_l250_m0_e0 | * | 97.1091 | 96.6013 | 97.6222 | 91.9886 | 739 | 26 | 739 | 18 | 2 | 11.1111 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.1198 | 98.2713 | 92.1642 | 62.1469 | 739 | 13 | 741 | 63 | 62 | 98.4127 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e0 | * | 64.8581 | 52.4858 | 84.8624 | 85.1067 | 739 | 669 | 740 | 132 | 104 | 78.7879 | |