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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36951-37000 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | D1_5 | HG002compoundhet | * | 46.3272 | 44.0131 | 48.8981 | 72.6225 | 5385 | 6850 | 5880 | 6145 | 3920 | 63.7917 | |
| gduggal-bwafb | INDEL | D1_5 | HG002compoundhet | homalt | 46.3350 | 95.8763 | 30.5495 | 82.2716 | 279 | 12 | 278 | 632 | 615 | 97.3101 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.3373 | 71.5686 | 34.2593 | 33.5385 | 73 | 29 | 74 | 142 | 132 | 92.9577 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 46.3415 | 30.3191 | 98.2759 | 68.9840 | 57 | 131 | 57 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 46.3519 | 40.9091 | 53.4653 | 59.0264 | 99 | 143 | 108 | 94 | 71 | 75.5319 | |
| eyeh-varpipe | INDEL | D6_15 | HG002compoundhet | hetalt | 46.3719 | 30.5239 | 96.4480 | 28.8641 | 2488 | 5663 | 3014 | 111 | 110 | 99.0991 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 46.3721 | 79.4421 | 32.7422 | 66.7816 | 769 | 199 | 757 | 1555 | 1454 | 93.5048 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m0_e0 | * | 46.3768 | 34.7826 | 69.5652 | 93.9153 | 16 | 30 | 16 | 7 | 6 | 85.7143 | |
| asubramanian-gatk | SNP | * | map_l125_m1_e0 | * | 46.3852 | 30.2138 | 99.8032 | 91.3119 | 13695 | 31632 | 13692 | 27 | 6 | 22.2222 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e0 | * | 46.3923 | 30.2201 | 99.7997 | 92.3039 | 4983 | 11506 | 4982 | 10 | 2 | 20.0000 | |
| gduggal-bwavard | INDEL | I6_15 | HG002compoundhet | homalt | 46.3972 | 38.7097 | 57.8947 | 75.6410 | 12 | 19 | 11 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 46.3980 | 31.1475 | 90.9091 | 61.1765 | 19 | 42 | 30 | 3 | 3 | 100.0000 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m0_e0 | het | 46.4088 | 31.5789 | 87.5000 | 93.2773 | 6 | 13 | 7 | 1 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 46.4146 | 34.9744 | 68.9769 | 73.6604 | 2941 | 5468 | 2926 | 1316 | 1208 | 91.7933 | |
| anovak-vg | INDEL | I1_5 | map_siren | het | 46.4738 | 35.8715 | 65.9729 | 86.5236 | 603 | 1078 | 634 | 327 | 82 | 25.0765 | |
| gduggal-snapplat | INDEL | D6_15 | map_l125_m0_e0 | het | 46.5116 | 34.4828 | 71.4286 | 97.4638 | 10 | 19 | 5 | 2 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 46.5116 | 43.4783 | 50.0000 | 85.0746 | 10 | 13 | 10 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 46.5132 | 44.6362 | 48.5550 | 51.5466 | 16918 | 20984 | 16885 | 17890 | 17519 | 97.9262 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 46.6061 | 61.8182 | 37.4023 | 55.7713 | 238 | 147 | 622 | 1041 | 745 | 71.5658 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | * | 46.6065 | 33.3972 | 77.1018 | 65.0425 | 1394 | 2780 | 1394 | 414 | 356 | 85.9903 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 46.6236 | 78.3459 | 33.1864 | 69.7120 | 521 | 144 | 527 | 1061 | 1053 | 99.2460 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 46.6247 | 43.6219 | 50.0715 | 62.1939 | 7000 | 9047 | 7003 | 6983 | 6898 | 98.7828 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | hetalt | 46.6253 | 31.0606 | 93.4579 | 92.4542 | 41 | 91 | 100 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e1 | * | 46.6345 | 30.4256 | 99.8030 | 92.2720 | 5068 | 11589 | 5067 | 10 | 2 | 20.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | map_siren | hetalt | 46.6667 | 43.7500 | 50.0000 | 77.7778 | 7 | 9 | 1 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | * | map_l250_m1_e0 | het | 46.6926 | 31.5789 | 89.5522 | 92.7095 | 60 | 130 | 60 | 7 | 1 | 14.2857 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 46.7522 | 70.4861 | 34.9754 | 65.3140 | 203 | 85 | 284 | 528 | 66 | 12.5000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 46.7905 | 38.6828 | 59.1981 | 64.3248 | 511 | 810 | 502 | 346 | 329 | 95.0867 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 46.7905 | 46.8317 | 46.7493 | 53.6445 | 1892 | 2148 | 3092 | 3522 | 2706 | 76.8313 | |
| eyeh-varpipe | INDEL | I6_15 | map_siren | hetalt | 46.8085 | 30.5556 | 100.0000 | 73.7226 | 22 | 50 | 36 | 0 | 0 | ||
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 46.8164 | 79.8780 | 33.1115 | 59.9867 | 393 | 99 | 398 | 804 | 747 | 92.9104 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| gduggal-snapvard | INDEL | I6_15 | map_siren | homalt | 46.8227 | 31.1111 | 94.5946 | 68.9076 | 28 | 62 | 35 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 46.8255 | 38.7947 | 59.0491 | 58.6382 | 1030 | 1625 | 1155 | 801 | 315 | 39.3258 | |
| asubramanian-gatk | SNP | ti | map_l100_m0_e0 | * | 46.8392 | 30.5957 | 99.8501 | 90.3797 | 6661 | 15110 | 6661 | 10 | 5 | 50.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 46.8416 | 83.8718 | 32.4948 | 49.6168 | 3245 | 624 | 3268 | 6789 | 6766 | 99.6612 | |
| gduggal-bwaplat | SNP | * | map_l250_m2_e0 | homalt | 46.8643 | 30.6031 | 100.0000 | 95.5710 | 822 | 1864 | 821 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l250_m2_e1 | homalt | 46.8732 | 30.6107 | 100.0000 | 95.5861 | 832 | 1886 | 831 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I16_PLUS | map_siren | het | 46.8750 | 30.6122 | 100.0000 | 69.8630 | 15 | 34 | 22 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | homalt | 46.8802 | 63.5258 | 37.1467 | 83.7347 | 209 | 120 | 276 | 467 | 330 | 70.6638 | |
| asubramanian-gatk | SNP | tv | map_l100_m0_e0 | het | 46.8906 | 30.6425 | 99.8196 | 93.3017 | 2213 | 5009 | 2213 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 46.9055 | 30.9190 | 97.1223 | 64.9698 | 683 | 1526 | 675 | 20 | 18 | 90.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 46.9083 | 32.3849 | 85.0498 | 32.2072 | 387 | 808 | 256 | 45 | 39 | 86.6667 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 46.9190 | 44.4652 | 49.6593 | 57.4245 | 19269 | 24066 | 19242 | 19506 | 19313 | 99.0106 | |
| gduggal-bwaplat | INDEL | I16_PLUS | map_siren | * | 46.9565 | 31.3953 | 93.1034 | 90.6149 | 27 | 59 | 27 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m0_e0 | homalt | 46.9836 | 30.7049 | 100.0000 | 82.8803 | 2387 | 5387 | 2387 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | homalt | 46.9945 | 30.7198 | 99.9411 | 85.1863 | 3393 | 7652 | 3393 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 46.9955 | 42.3432 | 52.7964 | 40.4686 | 8721 | 11875 | 8666 | 7748 | 7585 | 97.8962 | |
| eyeh-varpipe | INDEL | * | map_l100_m1_e0 | hetalt | 47.0062 | 31.4516 | 93.0000 | 92.1198 | 39 | 85 | 93 | 7 | 5 | 71.4286 | |