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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43201-43250 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | D1_5 | map_l250_m2_e0 | * | 72.9497 | 74.4565 | 71.5026 | 96.2008 | 137 | 47 | 138 | 55 | 24 | 43.6364 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e0 | homalt | 72.9494 | 57.4176 | 100.0000 | 91.2000 | 209 | 155 | 209 | 0 | 0 | ||
| ckim-isaac | INDEL | * | map_l125_m1_e0 | homalt | 72.9473 | 57.6503 | 99.2941 | 79.6358 | 422 | 310 | 422 | 3 | 1 | 33.3333 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 72.9446 | 66.2921 | 81.0811 | 71.4286 | 59 | 30 | 60 | 14 | 14 | 100.0000 | |
| ciseli-custom | INDEL | * | map_l100_m1_e0 | het | 72.9400 | 70.5593 | 75.4869 | 88.5098 | 1577 | 658 | 1589 | 516 | 305 | 59.1085 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | * | 72.9339 | 60.8681 | 90.9660 | 55.6863 | 45491 | 29246 | 45483 | 4517 | 3972 | 87.9345 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 72.9338 | 86.2903 | 63.1579 | 90.1262 | 107 | 17 | 84 | 49 | 4 | 8.1633 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | * | 72.9335 | 66.6356 | 80.5461 | 47.8493 | 1428 | 715 | 1416 | 342 | 260 | 76.0234 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | * | 72.9303 | 63.6686 | 85.3453 | 43.1989 | 3051 | 1741 | 3040 | 522 | 491 | 94.0613 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 72.9300 | 58.6592 | 96.3768 | 29.2308 | 105 | 74 | 133 | 5 | 4 | 80.0000 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 72.9289 | 95.5040 | 58.9859 | 74.2486 | 1933 | 91 | 1966 | 1367 | 32 | 2.3409 | |
| ckim-gatk | SNP | ti | map_l250_m1_e0 | het | 72.9254 | 58.6253 | 96.4523 | 96.6462 | 1740 | 1228 | 1740 | 64 | 8 | 12.5000 | |
| gduggal-bwaplat | SNP | tv | map_l150_m2_e1 | het | 72.9246 | 57.6211 | 99.2964 | 93.0175 | 4234 | 3114 | 4234 | 30 | 5 | 16.6667 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_siren | hetalt | 72.9211 | 61.2903 | 90.0000 | 77.2727 | 19 | 12 | 18 | 2 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 72.9167 | 73.4266 | 72.4138 | 93.7392 | 105 | 38 | 105 | 40 | 29 | 72.5000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 72.9167 | 57.3770 | 100.0000 | 85.5967 | 35 | 26 | 35 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 72.9057 | 90.7801 | 60.9122 | 43.2513 | 512 | 52 | 1616 | 1037 | 988 | 95.2748 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 72.8990 | 58.1328 | 97.7209 | 46.5971 | 2223 | 1601 | 2101 | 49 | 43 | 87.7551 | |
| gduggal-bwaplat | SNP | ti | map_l100_m0_e0 | * | 72.8908 | 57.5582 | 99.3581 | 86.0136 | 12531 | 9240 | 12537 | 81 | 26 | 32.0988 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 72.8872 | 59.3023 | 94.5455 | 73.4300 | 51 | 35 | 52 | 3 | 2 | 66.6667 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 72.8837 | 58.1081 | 97.7358 | 91.6876 | 258 | 186 | 259 | 6 | 5 | 83.3333 | |
| ckim-gatk | SNP | ti | map_l150_m0_e0 | * | 72.8820 | 58.1733 | 97.5459 | 92.0553 | 4573 | 3288 | 4571 | 115 | 19 | 16.5217 | |
| anovak-vg | INDEL | I1_5 | tech_badpromoters | homalt | 72.8745 | 69.2308 | 76.9231 | 40.9091 | 9 | 4 | 10 | 3 | 2 | 66.6667 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 72.8701 | 70.9790 | 74.8646 | 68.2103 | 67039 | 27410 | 79629 | 26735 | 20426 | 76.4017 | |
| egarrison-hhga | INDEL | D6_15 | map_siren | hetalt | 72.8695 | 58.5859 | 96.3636 | 78.5992 | 58 | 41 | 53 | 2 | 1 | 50.0000 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.8692 | 95.0543 | 59.0803 | 78.2168 | 27292 | 1420 | 27789 | 19247 | 483 | 2.5095 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.8692 | 95.0543 | 59.0803 | 78.2168 | 27292 | 1420 | 27789 | 19247 | 483 | 2.5095 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 72.8639 | 81.3378 | 65.9890 | 43.5053 | 2663 | 611 | 5875 | 3028 | 2874 | 94.9141 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 72.8617 | 57.7406 | 98.7124 | 51.8595 | 690 | 505 | 690 | 9 | 9 | 100.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 72.8517 | 89.6171 | 61.3706 | 74.5275 | 1381 | 160 | 1406 | 885 | 863 | 97.5141 | |
| anovak-vg | INDEL | * | map_l125_m2_e0 | * | 72.8494 | 74.4991 | 71.2712 | 87.8407 | 1636 | 560 | 1682 | 678 | 383 | 56.4897 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.8477 | 64.7059 | 83.3333 | 95.1613 | 11 | 6 | 10 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | homalt | 72.8475 | 57.3011 | 99.9705 | 80.8330 | 6777 | 5050 | 6777 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 72.8440 | 62.9842 | 86.3636 | 38.2927 | 439 | 258 | 437 | 69 | 65 | 94.2029 | |
| qzeng-custom | SNP | ti | map_l250_m1_e0 | homalt | 72.8401 | 57.4984 | 99.3478 | 88.5158 | 924 | 683 | 914 | 6 | 6 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 72.8368 | 57.5419 | 99.2063 | 28.0000 | 103 | 76 | 125 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_l100_m2_e0 | het | 72.8311 | 60.4167 | 91.6667 | 82.9384 | 29 | 19 | 33 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l250_m1_e0 | het | 72.8227 | 58.4569 | 96.5498 | 96.7644 | 1735 | 1233 | 1735 | 62 | 7 | 11.2903 | |
| ckim-isaac | INDEL | D1_5 | map_l125_m2_e0 | homalt | 72.8223 | 57.4176 | 99.5238 | 81.1321 | 209 | 155 | 209 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 72.8203 | 57.4281 | 99.4845 | 34.4595 | 719 | 533 | 193 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e1 | het | 72.8186 | 59.0331 | 95.0041 | 96.9764 | 1160 | 805 | 1160 | 61 | 1 | 1.6393 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.8176 | 66.8723 | 79.9231 | 50.7780 | 1843 | 913 | 1871 | 470 | 429 | 91.2766 | |
| anovak-vg | INDEL | * | HG002complexvar | * | 72.8155 | 71.0364 | 74.6860 | 53.4026 | 54654 | 22284 | 56069 | 19004 | 16560 | 87.1395 | |
| anovak-vg | INDEL | * | map_l150_m2_e1 | * | 72.7945 | 74.6352 | 71.0425 | 90.5099 | 1074 | 365 | 1104 | 450 | 242 | 53.7778 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | * | 72.7922 | 67.2062 | 79.3909 | 62.5413 | 8304 | 4052 | 8290 | 2152 | 2132 | 99.0706 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 72.7873 | 95.7746 | 58.6987 | 85.9415 | 816 | 36 | 830 | 584 | 143 | 24.4863 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 72.7828 | 81.3725 | 65.8333 | 95.3952 | 83 | 19 | 79 | 41 | 9 | 21.9512 | |
| jmaeng-gatk | SNP | ti | map_l150_m0_e0 | * | 72.7820 | 58.0842 | 97.4381 | 92.2027 | 4566 | 3295 | 4564 | 120 | 17 | 14.1667 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 72.7782 | 64.6063 | 83.3167 | 68.8822 | 2519 | 1380 | 2512 | 503 | 427 | 84.8907 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 72.7768 | 59.8071 | 92.9293 | 81.5471 | 186 | 125 | 184 | 14 | 12 | 85.7143 | |