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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27601-27650 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | het | 94.8823 | 98.1176 | 91.8536 | 86.7262 | 834 | 16 | 778 | 69 | 67 | 97.1014 | |
| ghariani-varprowl | INDEL | D1_5 | map_l100_m0_e0 | homalt | 94.8819 | 93.4109 | 96.4000 | 79.4069 | 241 | 17 | 241 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8816 | 95.9653 | 93.8220 | 79.5053 | 3877 | 163 | 3584 | 236 | 208 | 88.1356 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m0_e0 | * | 94.8813 | 98.3871 | 91.6168 | 91.9265 | 305 | 5 | 306 | 28 | 2 | 7.1429 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 94.8810 | 91.7722 | 98.2079 | 71.1479 | 290 | 26 | 274 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8806 | 94.6889 | 95.0731 | 64.4402 | 1248 | 70 | 1235 | 64 | 61 | 95.3125 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 94.8802 | 99.4227 | 90.7347 | 62.0390 | 2239 | 13 | 2223 | 227 | 39 | 17.1806 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 94.8795 | 90.5594 | 99.6324 | 53.1842 | 259 | 27 | 271 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 94.8782 | 93.0607 | 96.7682 | 51.4476 | 20706 | 1544 | 21469 | 717 | 639 | 89.1213 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m0_e0 | * | 94.8781 | 98.7903 | 91.2639 | 91.8584 | 490 | 6 | 491 | 47 | 3 | 6.3830 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8741 | 95.6080 | 94.1515 | 50.7143 | 2351 | 108 | 9160 | 569 | 536 | 94.2004 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 94.8739 | 99.0838 | 91.0072 | 91.6037 | 757 | 7 | 759 | 75 | 4 | 5.3333 | |
| cchapple-custom | INDEL | D1_5 | map_l150_m2_e1 | het | 94.8726 | 96.9349 | 92.8962 | 88.6523 | 506 | 16 | 510 | 39 | 4 | 10.2564 | |
| cchapple-custom | INDEL | D6_15 | map_siren | het | 94.8724 | 94.6429 | 95.1031 | 81.6462 | 265 | 15 | 369 | 19 | 8 | 42.1053 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002complexvar | het | 94.8719 | 95.3930 | 94.3564 | 62.7718 | 1056 | 51 | 953 | 57 | 52 | 91.2281 | |
| jlack-gatk | INDEL | * | map_l125_m1_e0 | hetalt | 94.8718 | 92.5000 | 97.3684 | 93.0657 | 37 | 3 | 37 | 1 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | ti | tech_badpromoters | homalt | 94.8718 | 90.2439 | 100.0000 | 44.7761 | 37 | 4 | 37 | 0 | 0 | ||
| ckim-isaac | SNP | ti | tech_badpromoters | homalt | 94.8718 | 90.2439 | 100.0000 | 22.9167 | 37 | 4 | 37 | 0 | 0 | ||
| gduggal-bwaplat | SNP | ti | tech_badpromoters | homalt | 94.8718 | 90.2439 | 100.0000 | 44.7761 | 37 | 4 | 37 | 0 | 0 | ||
| cchapple-custom | INDEL | D16_PLUS | segdup | * | 94.8714 | 94.8276 | 94.9153 | 95.0833 | 55 | 3 | 56 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | tv | map_l125_m0_e0 | het | 94.8705 | 96.8189 | 92.9989 | 81.5819 | 4261 | 140 | 4264 | 321 | 56 | 17.4455 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e0 | * | 94.8696 | 95.2811 | 94.4616 | 90.2325 | 2746 | 136 | 2746 | 161 | 55 | 34.1615 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.8694 | 94.5122 | 95.2294 | 59.8083 | 155 | 9 | 519 | 26 | 23 | 88.4615 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m1_e0 | het | 94.8682 | 95.0000 | 94.7368 | 87.3333 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e0 | het | 94.8682 | 95.0000 | 94.7368 | 89.2045 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e1 | het | 94.8682 | 95.0000 | 94.7368 | 89.3258 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e1 | hetalt | 94.8678 | 90.9091 | 99.1870 | 86.1953 | 120 | 12 | 122 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e1 | hetalt | 94.8678 | 90.9091 | 99.1870 | 87.3846 | 120 | 12 | 122 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.8673 | 90.5405 | 99.6283 | 86.5685 | 2144 | 224 | 2144 | 8 | 3 | 37.5000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l150_m2_e1 | homalt | 94.8670 | 91.1290 | 98.9247 | 84.2195 | 226 | 22 | 276 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_siren | * | 94.8669 | 91.8674 | 98.0688 | 84.1980 | 3242 | 287 | 3250 | 64 | 8 | 12.5000 | |
| jmaeng-gatk | SNP | tv | map_siren | het | 94.8661 | 92.5932 | 97.2533 | 75.2567 | 26490 | 2119 | 26485 | 748 | 25 | 3.3423 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 94.8647 | 92.1636 | 97.7290 | 70.8955 | 26462 | 2250 | 26465 | 615 | 21 | 3.4146 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 94.8647 | 92.1636 | 97.7290 | 70.8955 | 26462 | 2250 | 26465 | 615 | 21 | 3.4146 | |
| ckim-vqsr | INDEL | * | map_l150_m2_e0 | het | 94.8645 | 94.7020 | 95.0276 | 94.4740 | 858 | 48 | 860 | 45 | 4 | 8.8889 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 94.8643 | 95.7447 | 94.0000 | 79.3388 | 45 | 2 | 47 | 3 | 1 | 33.3333 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.8642 | 98.5648 | 91.4314 | 69.9321 | 32759 | 477 | 33260 | 3117 | 2975 | 95.4443 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 94.8642 | 95.2989 | 94.4335 | 80.6105 | 13886 | 685 | 13911 | 820 | 85 | 10.3659 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 94.8642 | 95.2989 | 94.4335 | 80.6105 | 13886 | 685 | 13911 | 820 | 85 | 10.3659 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m1_e0 | het | 94.8621 | 95.6432 | 94.0937 | 93.3890 | 461 | 21 | 462 | 29 | 3 | 10.3448 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.8619 | 95.7143 | 94.0246 | 80.9444 | 1273 | 57 | 1070 | 68 | 57 | 83.8235 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 94.8617 | 90.9091 | 99.1736 | 77.2556 | 120 | 12 | 120 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 94.8617 | 94.4882 | 95.2381 | 52.2727 | 120 | 7 | 120 | 6 | 5 | 83.3333 | |
| astatham-gatk | INDEL | D1_5 | map_l250_m2_e1 | het | 94.8617 | 98.3607 | 91.6031 | 96.0122 | 120 | 2 | 120 | 11 | 1 | 9.0909 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.8610 | 91.4980 | 98.4807 | 64.9564 | 226 | 21 | 713 | 11 | 8 | 72.7273 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e0 | homalt | 94.8608 | 92.0998 | 97.7925 | 87.5618 | 443 | 38 | 443 | 10 | 3 | 30.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.8607 | 93.0351 | 96.7593 | 72.4507 | 5677 | 425 | 6509 | 218 | 163 | 74.7706 | |
| ckim-vqsr | INDEL | * | map_l150_m1_e0 | het | 94.8598 | 94.8538 | 94.8658 | 94.1088 | 811 | 44 | 813 | 44 | 4 | 9.0909 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.8587 | 90.8856 | 99.1952 | 37.8556 | 1755 | 176 | 1972 | 16 | 15 | 93.7500 | |