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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11901-11950 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.4723 | 80.0551 | 98.8675 | 51.9325 | 871 | 217 | 873 | 10 | 5 | 50.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7448 | 94.4798 | 99.1212 | 50.4094 | 3714 | 217 | 3722 | 33 | 3 | 9.0909 | |
| dgrover-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4181 | 99.5505 | 99.2861 | 75.9770 | 48054 | 217 | 47844 | 344 | 262 | 76.1628 | |
| ghariani-varprowl | SNP | ti | map_l125_m2_e1 | het | 97.6784 | 98.8631 | 96.5217 | 79.2114 | 18870 | 217 | 18870 | 680 | 143 | 21.0294 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 42.0587 | 30.6709 | 66.8966 | 62.3377 | 96 | 217 | 97 | 48 | 42 | 87.5000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.9269 | 85.8170 | 96.6839 | 77.1395 | 1313 | 217 | 1312 | 45 | 41 | 91.1111 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.9269 | 85.8170 | 96.6839 | 77.1395 | 1313 | 217 | 1312 | 45 | 41 | 91.1111 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l100_m2_e0 | het | 83.8663 | 72.7617 | 98.9708 | 93.0529 | 577 | 216 | 577 | 6 | 1 | 16.6667 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 58.2480 | 73.8182 | 48.1020 | 32.1234 | 609 | 216 | 1736 | 1873 | 1859 | 99.2525 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 58.2480 | 73.8182 | 48.1020 | 32.1234 | 609 | 216 | 1736 | 1873 | 1859 | 99.2525 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | het | 99.0978 | 99.2392 | 98.9567 | 74.3753 | 28176 | 216 | 28170 | 297 | 25 | 8.4175 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 0.4608 | 0.0000 | 0.0000 | 1 | 216 | 0 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | * | * | 97.3609 | 96.6128 | 98.1207 | 70.7109 | 6161 | 216 | 6161 | 118 | 83 | 70.3390 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5789 | 95.9353 | 99.2797 | 63.8316 | 5098 | 216 | 5100 | 37 | 30 | 81.0811 | |
| ckim-isaac | INDEL | * | map_l150_m0_e0 | * | 72.7717 | 57.9767 | 97.7049 | 93.3158 | 298 | 216 | 298 | 7 | 2 | 28.5714 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 69.5601 | 72.7617 | 66.6284 | 86.3856 | 577 | 216 | 581 | 291 | 251 | 86.2543 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.0656 | 94.3233 | 99.9723 | 28.7295 | 3589 | 216 | 3606 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9665 | 96.2317 | 99.7649 | 58.1536 | 5516 | 216 | 5517 | 13 | 11 | 84.6154 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3799 | 99.5525 | 99.2079 | 75.4457 | 48055 | 216 | 47847 | 382 | 297 | 77.7487 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.3939 | 98.8110 | 96.0169 | 66.9230 | 17950 | 216 | 18586 | 771 | 551 | 71.4656 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.3939 | 98.8110 | 96.0169 | 66.9230 | 17950 | 216 | 18586 | 771 | 551 | 71.4656 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 84.9521 | 75.2294 | 97.5610 | 27.3958 | 656 | 216 | 680 | 17 | 17 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 89.0850 | 93.1385 | 85.3697 | 68.5884 | 2932 | 216 | 3256 | 558 | 215 | 38.5305 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.2180 | 98.6853 | 93.8711 | 58.0279 | 16213 | 216 | 34875 | 2277 | 1868 | 82.0378 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e0 | homalt | 98.0723 | 96.4102 | 99.7927 | 68.8173 | 5801 | 216 | 5778 | 12 | 9 | 75.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 0.4608 | 0.0000 | 0.0000 | 1 | 216 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | ti | map_l125_m2_e0 | het | 97.6605 | 98.8557 | 96.4939 | 79.1594 | 18660 | 216 | 18660 | 678 | 143 | 21.0914 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 80.1599 | 93.1385 | 70.3560 | 81.4743 | 2932 | 216 | 2905 | 1224 | 64 | 5.2288 | |
| ndellapenna-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5085 | 97.7714 | 99.2568 | 64.1000 | 9476 | 216 | 9482 | 71 | 46 | 64.7887 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e1 | het | 97.6025 | 95.8967 | 99.3701 | 87.9415 | 5048 | 216 | 5048 | 32 | 14 | 43.7500 | |
| mlin-fermikit | INDEL | * | map_l150_m0_e0 | het | 52.0833 | 36.6569 | 89.9281 | 85.9312 | 125 | 216 | 125 | 14 | 4 | 28.5714 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.0813 | 77.1186 | 100.0000 | 34.4884 | 728 | 216 | 794 | 0 | 0 | ||
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | * | 88.7656 | 86.9142 | 90.6977 | 68.5511 | 1428 | 215 | 1443 | 148 | 132 | 89.1892 | |
| qzeng-custom | SNP | ti | HG002compoundhet | het | 98.0838 | 97.7380 | 98.4320 | 42.6883 | 9290 | 215 | 11739 | 187 | 45 | 24.0642 | |
| ciseli-custom | SNP | tv | map_l250_m1_e0 | homalt | 77.9222 | 74.8832 | 81.2183 | 87.6682 | 641 | 215 | 640 | 148 | 105 | 70.9459 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0389 | 96.6511 | 99.4672 | 62.4367 | 6205 | 215 | 11948 | 64 | 47 | 73.4375 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0389 | 96.6511 | 99.4672 | 62.4367 | 6205 | 215 | 11948 | 64 | 47 | 73.4375 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 96.0463 | 0.0000 | 0.0000 | 5223 | 215 | 0 | 0 | 0 | ||
| jlack-gatk | INDEL | I1_5 | HG002complexvar | * | 99.5214 | 99.3556 | 99.6877 | 57.0609 | 33148 | 215 | 33197 | 104 | 72 | 69.2308 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.3392 | 96.1587 | 98.5491 | 67.9366 | 5382 | 215 | 5366 | 79 | 71 | 89.8734 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6540 | 95.9541 | 99.4153 | 63.0411 | 5099 | 215 | 5101 | 30 | 22 | 73.3333 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.9055 | 69.1535 | 84.1187 | 50.6034 | 482 | 215 | 482 | 91 | 88 | 96.7033 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 79.3931 | 78.6070 | 80.1951 | 58.1462 | 790 | 215 | 822 | 203 | 195 | 96.0591 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.5850 | 80.2390 | 98.8688 | 62.7319 | 873 | 215 | 874 | 10 | 8 | 80.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_siren | * | 93.4444 | 92.8453 | 94.0513 | 82.2555 | 2790 | 215 | 2751 | 174 | 115 | 66.0920 | |
| eyeh-varpipe | SNP | * | map_siren | het | 98.0835 | 99.7637 | 96.4589 | 61.2396 | 90776 | 215 | 87713 | 3220 | 51 | 1.5839 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.2637 | 99.3096 | 91.5345 | 77.9592 | 30928 | 215 | 29962 | 2771 | 142 | 5.1245 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.2637 | 99.3096 | 91.5345 | 77.9592 | 30928 | 215 | 29962 | 2771 | 142 | 5.1245 | |