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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3701-3750 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7484 | 92.8627 | 96.7122 | 44.0182 | 19126 | 1470 | 19885 | 676 | 622 | 92.0118 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e0 | het | 99.1127 | 98.7632 | 99.4646 | 75.9700 | 19884 | 249 | 19878 | 107 | 27 | 25.2336 | |
| ckim-dragen | SNP | * | map_l150_m2_e0 | het | 97.5195 | 98.7086 | 96.3588 | 81.7586 | 19873 | 260 | 19874 | 751 | 69 | 9.1878 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e0 | het | 98.5424 | 98.7434 | 98.3423 | 77.9851 | 19880 | 253 | 19874 | 335 | 4 | 1.1940 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2830 | 96.3585 | 98.2253 | 48.3467 | 19846 | 750 | 19870 | 359 | 319 | 88.8579 | |
| gduggal-snapplat | SNP | ti | map_l100_m0_e0 | * | 93.4813 | 91.1488 | 95.9364 | 78.9527 | 19844 | 1927 | 19855 | 841 | 482 | 57.3127 | |
| ciseli-custom | SNP | tv | map_l100_m2_e0 | * | 83.0120 | 79.3073 | 87.0798 | 73.4407 | 19853 | 5180 | 19842 | 2944 | 713 | 24.2188 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | het | 99.1156 | 98.5298 | 99.7085 | 75.6800 | 19837 | 296 | 19837 | 58 | 22 | 37.9310 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | * | 95.3841 | 97.5624 | 93.3010 | 83.0334 | 20012 | 500 | 19833 | 1424 | 93 | 6.5309 | |
| jli-custom | SNP | * | map_l150_m2_e0 | het | 98.8511 | 98.5099 | 99.1946 | 74.6204 | 19833 | 300 | 19830 | 161 | 49 | 30.4348 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e0 | * | 97.3631 | 96.6654 | 98.0710 | 80.0739 | 19828 | 684 | 19828 | 390 | 140 | 35.8974 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | * | 96.8497 | 96.6995 | 97.0004 | 78.4535 | 19835 | 677 | 19823 | 613 | 163 | 26.5905 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | het | 98.2282 | 98.4453 | 98.0121 | 79.6044 | 19820 | 313 | 19820 | 402 | 96 | 23.8806 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 83.2820 | 90.9950 | 76.7743 | 72.8145 | 19927 | 1972 | 19807 | 5992 | 5413 | 90.3371 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | het | 98.4558 | 97.2204 | 99.7229 | 66.1731 | 19797 | 566 | 19797 | 55 | 9 | 16.3636 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 70.1135 | 58.5834 | 87.2943 | 32.4261 | 3358 | 2374 | 19787 | 2880 | 2850 | 98.9583 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 63.2865 | 63.0325 | 63.5426 | 64.6177 | 19796 | 11610 | 19777 | 11347 | 6716 | 59.1875 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 63.2865 | 63.0325 | 63.5426 | 64.6177 | 19796 | 11610 | 19777 | 11347 | 6716 | 59.1875 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7194 | 96.0089 | 99.4918 | 41.3653 | 19774 | 822 | 19775 | 101 | 87 | 86.1386 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6832 | 96.0089 | 99.4168 | 42.4933 | 19774 | 822 | 19775 | 116 | 110 | 94.8276 | |
| cchapple-custom | SNP | * | map_l150_m2_e1 | het | 95.7763 | 96.9945 | 94.5883 | 81.9692 | 19751 | 612 | 19768 | 1131 | 246 | 21.7507 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | * | 67.1085 | 66.3284 | 67.9072 | 58.7807 | 19872 | 10088 | 19761 | 9339 | 9228 | 98.8114 | |
| mlin-fermikit | INDEL | D1_5 | HG002complexvar | het | 96.8827 | 95.7525 | 98.0399 | 50.2469 | 19883 | 882 | 19757 | 395 | 351 | 88.8608 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5315 | 99.4915 | 99.5716 | 59.7014 | 19761 | 101 | 19754 | 85 | 47 | 55.2941 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e1 | het | 95.8511 | 96.9945 | 94.7343 | 76.7883 | 19751 | 612 | 19754 | 1098 | 511 | 46.5392 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5288 | 99.4462 | 99.6115 | 59.5139 | 19752 | 110 | 19745 | 77 | 49 | 63.6364 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4660 | 99.4311 | 99.5010 | 59.2336 | 19749 | 113 | 19742 | 99 | 60 | 60.6061 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | * | 92.6900 | 96.1203 | 89.4961 | 82.4891 | 19919 | 804 | 19733 | 2316 | 191 | 8.2470 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6143 | 95.7565 | 99.5458 | 41.0573 | 19722 | 874 | 19723 | 90 | 82 | 91.1111 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4504 | 99.3304 | 99.5707 | 59.9377 | 19729 | 133 | 19713 | 85 | 64 | 75.2941 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1585 | 95.7079 | 98.6538 | 44.4898 | 19712 | 884 | 19713 | 269 | 264 | 98.1413 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e1 | het | 93.0515 | 97.9865 | 88.5898 | 85.8074 | 19953 | 410 | 19713 | 2539 | 128 | 5.0414 | |
| jmaeng-gatk | SNP | tv | map_l100_m1_e0 | * | 88.1452 | 80.4375 | 97.4866 | 80.6623 | 19708 | 4793 | 19704 | 508 | 16 | 3.1496 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e0 | * | 96.3262 | 95.9877 | 96.6670 | 77.7511 | 19689 | 823 | 19693 | 679 | 349 | 51.3991 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | * | 88.1419 | 80.3355 | 97.6286 | 80.4620 | 19683 | 4818 | 19679 | 478 | 17 | 3.5565 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4336 | 95.2855 | 99.6808 | 39.8879 | 19625 | 971 | 19673 | 63 | 52 | 82.5397 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3059 | 99.0585 | 99.5546 | 59.8847 | 19675 | 187 | 19668 | 88 | 46 | 52.2727 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e0 | het | 98.6606 | 97.6854 | 99.6554 | 74.6307 | 19667 | 466 | 19667 | 68 | 30 | 44.1176 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | het | 98.1705 | 96.5771 | 99.8173 | 61.6528 | 19666 | 697 | 19666 | 36 | 2 | 5.5556 | |
| mlin-fermikit | SNP | tv | map_siren | het | 80.8694 | 68.7161 | 98.2452 | 51.7745 | 19659 | 8950 | 19651 | 351 | 3 | 0.8547 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0126 | 98.9729 | 99.0524 | 59.2954 | 19658 | 204 | 19651 | 188 | 96 | 51.0638 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3204 | 98.9679 | 99.6754 | 59.9358 | 19657 | 205 | 19650 | 64 | 45 | 70.3125 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | het | 97.8792 | 99.5826 | 96.2332 | 80.4169 | 20278 | 85 | 19646 | 769 | 22 | 2.8609 | |
| gduggal-bwaplat | SNP | * | map_l125_m2_e0 | het | 79.9285 | 66.9418 | 99.1669 | 89.4354 | 19626 | 9692 | 19640 | 165 | 44 | 26.6667 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1711 | 98.8017 | 99.5433 | 59.8357 | 19624 | 238 | 19617 | 90 | 58 | 64.4444 | |
| gduggal-snapplat | SNP | * | map_l100_m0_e0 | het | 93.0063 | 92.3697 | 93.6518 | 83.5542 | 19587 | 1618 | 19606 | 1329 | 738 | 55.5305 | |
| ckim-isaac | INDEL | I6_15 | * | * | 86.2978 | 78.9268 | 95.1875 | 41.9911 | 19592 | 5231 | 19601 | 991 | 727 | 73.3602 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2458 | 98.7161 | 99.7811 | 57.1497 | 19607 | 255 | 19600 | 43 | 25 | 58.1395 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2054 | 98.6910 | 99.7252 | 56.8874 | 19602 | 260 | 19598 | 54 | 35 | 64.8148 | |
| hfeng-pmm3 | SNP | ti | map_l150_m1_e0 | * | 99.4898 | 99.4217 | 99.5579 | 74.0428 | 19598 | 114 | 19594 | 87 | 14 | 16.0920 | |