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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52201-52250 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 36.0211 | 23.0321 | 82.6087 | 60.0000 | 79 | 264 | 38 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 31.4802 | 22.9894 | 49.9162 | 51.5028 | 303 | 1015 | 298 | 299 | 239 | 79.9331 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m1_e0 | * | 35.2996 | 22.9885 | 76.0000 | 91.9094 | 20 | 67 | 19 | 6 | 3 | 50.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 37.3832 | 22.9885 | 100.0000 | 99.9711 | 20 | 67 | 20 | 0 | 0 | ||
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 28.1855 | 22.9755 | 36.4514 | 63.8922 | 610 | 2045 | 982 | 1712 | 1115 | 65.1285 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 35.9600 | 22.9630 | 82.8571 | 58.3333 | 31 | 104 | 29 | 6 | 3 | 50.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 37.1380 | 22.9618 | 97.0630 | 40.4691 | 583 | 1956 | 1355 | 41 | 41 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 32.8358 | 22.9167 | 57.8947 | 98.1500 | 11 | 37 | 11 | 8 | 4 | 50.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 36.2460 | 22.8571 | 87.5000 | 74.1935 | 8 | 27 | 7 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 28.0124 | 22.8571 | 36.1702 | 73.8889 | 8 | 27 | 17 | 30 | 17 | 56.6667 | |
| gduggal-bwaplat | SNP | tv | map_l250_m0_e0 | homalt | 37.1308 | 22.7979 | 100.0000 | 98.3841 | 44 | 149 | 44 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 33.4409 | 22.7870 | 62.8044 | 47.2074 | 260 | 881 | 748 | 443 | 442 | 99.7743 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 23.2323 | 22.7723 | 23.7113 | 98.6305 | 23 | 78 | 23 | 74 | 6 | 8.1081 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002compoundhet | * | 28.2801 | 22.7680 | 37.3134 | 28.0307 | 533 | 1808 | 525 | 882 | 881 | 99.8866 | |
| asubramanian-gatk | SNP | tv | map_l125_m0_e0 | het | 37.0699 | 22.7676 | 99.7015 | 96.2071 | 1002 | 3399 | 1002 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I6_15 | HG002compoundhet | * | 31.2822 | 22.7666 | 49.9744 | 31.5356 | 1998 | 6778 | 1954 | 1956 | 1488 | 76.0736 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 31.2539 | 22.7545 | 49.8886 | 70.3042 | 228 | 774 | 224 | 225 | 200 | 88.8889 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 25.7821 | 22.7376 | 29.7679 | 52.9440 | 299 | 1016 | 295 | 696 | 682 | 97.9885 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 36.1446 | 22.7273 | 88.2353 | 99.4016 | 15 | 51 | 15 | 2 | 0 | 0.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 22.7920 | 22.7273 | 22.8571 | 61.5385 | 5 | 17 | 8 | 27 | 15 | 55.5556 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 32.9670 | 22.7273 | 60.0000 | 98.0964 | 10 | 34 | 9 | 6 | 4 | 66.6667 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 32.3741 | 22.7273 | 56.2500 | 98.1352 | 10 | 34 | 9 | 7 | 4 | 57.1429 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 36.4238 | 22.7273 | 91.6667 | 97.8799 | 10 | 34 | 11 | 1 | 0 | 0.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.2728 | 22.6804 | 55.9262 | 35.3818 | 792 | 2700 | 1576 | 1242 | 1045 | 84.1385 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 35.8000 | 22.6696 | 85.0767 | 69.9119 | 608 | 2074 | 610 | 107 | 84 | 78.5047 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 26.4385 | 22.6686 | 31.7125 | 37.5578 | 158 | 539 | 300 | 646 | 514 | 79.5666 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | homalt | 36.9577 | 22.6676 | 100.0000 | 90.0284 | 1018 | 3473 | 1018 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 32.9929 | 22.6568 | 60.6716 | 52.9029 | 1344 | 4588 | 1319 | 855 | 827 | 96.7251 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.3653 | 22.6531 | 71.1538 | 64.7856 | 111 | 379 | 111 | 45 | 35 | 77.7778 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.7321 | 22.6516 | 58.9793 | 55.7780 | 1565 | 5344 | 1537 | 1069 | 1020 | 95.4163 | |
| mlin-fermikit | INDEL | * | map_l250_m0_e0 | het | 34.7826 | 22.6415 | 75.0000 | 95.5307 | 12 | 41 | 12 | 4 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 29.4305 | 22.6149 | 42.1263 | 81.2487 | 2278 | 7795 | 2734 | 3756 | 1082 | 28.8072 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 32.1716 | 22.5989 | 55.8140 | 74.4554 | 80 | 274 | 72 | 57 | 6 | 10.5263 | |
| mlin-fermikit | SNP | ti | map_l250_m0_e0 | het | 36.6957 | 22.5910 | 97.6852 | 83.7594 | 211 | 723 | 211 | 5 | 1 | 20.0000 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 32.8464 | 22.5806 | 60.2273 | 99.9609 | 28 | 96 | 53 | 35 | 24 | 68.5714 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 33.1361 | 22.5806 | 62.2222 | 91.9210 | 35 | 120 | 28 | 17 | 1 | 5.8824 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 22.5610 | 0.0000 | 0.0000 | 74 | 254 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | HG002compoundhet | hetalt | 0.0000 | 22.5606 | 0.0000 | 0.0000 | 1926 | 6611 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | * | hetalt | 0.0000 | 22.5588 | 0.0000 | 0.0000 | 1929 | 6622 | 0 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 35.7143 | 22.5564 | 85.7143 | 93.7500 | 30 | 103 | 30 | 5 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 32.8326 | 22.5000 | 60.7143 | 91.1532 | 36 | 124 | 34 | 22 | 12 | 54.5455 | |
| gduggal-snapplat | INDEL | * | map_l125_m1_e0 | hetalt | 35.9102 | 22.5000 | 88.8889 | 99.0405 | 9 | 31 | 8 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 24.7859 | 22.4655 | 27.6409 | 40.6626 | 472 | 1629 | 505 | 1322 | 1216 | 91.9818 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 29.2224 | 22.4601 | 41.8109 | 44.2465 | 619 | 2137 | 628 | 874 | 744 | 85.1259 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 25.2937 | 22.4179 | 29.0158 | 55.9542 | 471 | 1630 | 513 | 1255 | 1101 | 87.7291 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 31.9699 | 22.4138 | 55.7303 | 40.4682 | 104 | 360 | 496 | 394 | 328 | 83.2487 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 34.8632 | 22.3938 | 78.6667 | 77.6119 | 58 | 201 | 59 | 16 | 16 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 34.7605 | 22.3938 | 77.6316 | 77.3134 | 58 | 201 | 59 | 17 | 17 | 100.0000 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 33.0066 | 22.3881 | 62.7851 | 75.4350 | 540 | 1872 | 523 | 310 | 285 | 91.9355 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m0_e0 | homalt | 34.6359 | 22.3881 | 76.4706 | 94.6875 | 15 | 52 | 13 | 4 | 1 | 25.0000 | |