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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62301-62350 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 90.7380 | 98.6175 | 84.0244 | 38.7433 | 1926 | 27 | 1925 | 366 | 364 | 99.4536 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.1740 | 97.0537 | 85.9659 | 38.7403 | 4480 | 136 | 4490 | 733 | 8 | 1.0914 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 53.8085 | 55.7377 | 52.0085 | 38.7306 | 68 | 54 | 246 | 227 | 226 | 99.5595 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | homalt | 78.9714 | 80.2306 | 77.7510 | 38.7303 | 974 | 240 | 968 | 277 | 275 | 99.2780 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.3367 | 84.1772 | 99.8273 | 38.7302 | 532 | 100 | 578 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4163 | 93.6820 | 99.3151 | 38.7290 | 1809 | 122 | 2030 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4163 | 93.6820 | 99.3151 | 38.7290 | 1809 | 122 | 2030 | 14 | 14 | 100.0000 | |
| gduggal-snapfb | SNP | ti | HG002compoundhet | homalt | 96.6035 | 99.0803 | 94.2476 | 38.7254 | 7326 | 68 | 7340 | 448 | 160 | 35.7143 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.5554 | 89.9881 | 95.2735 | 38.7245 | 28789 | 3203 | 28422 | 1410 | 1207 | 85.6028 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 67.2854 | 50.6993 | 100.0000 | 38.7234 | 145 | 141 | 144 | 0 | 0 | ||
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 83.1109 | 76.3884 | 91.1308 | 38.7228 | 4154 | 1284 | 411 | 40 | 40 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.0966 | 87.6813 | 88.5158 | 38.7217 | 21517 | 3023 | 21589 | 2801 | 2559 | 91.3602 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.2691 | 51.0539 | 98.5788 | 38.7173 | 872 | 836 | 763 | 11 | 9 | 81.8182 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.0369 | 97.2561 | 98.8304 | 38.7097 | 319 | 9 | 338 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.8071 | 93.8433 | 99.9643 | 38.7051 | 5533 | 363 | 5593 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.8071 | 93.8433 | 99.9643 | 38.7051 | 5533 | 363 | 5593 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | * | het | 50.8662 | 38.8889 | 73.5049 | 38.7042 | 1057 | 1661 | 1057 | 381 | 381 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.6743 | 98.7234 | 96.6472 | 38.6953 | 464 | 6 | 1989 | 69 | 66 | 95.6522 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.1577 | 91.3256 | 99.3255 | 38.6854 | 2990 | 284 | 8246 | 56 | 45 | 80.3571 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9397 | 98.7667 | 99.1133 | 38.6843 | 11292 | 141 | 11289 | 101 | 1 | 0.9901 | |
| ndellapenna-hhga | INDEL | I6_15 | * | hetalt | 95.2209 | 91.6969 | 99.0267 | 38.6839 | 7841 | 710 | 7834 | 77 | 70 | 90.9091 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 100.0000 | 100.0000 | 100.0000 | 38.6814 | 1330 | 0 | 1330 | 0 | 0 | ||
| gduggal-bwafb | SNP | * | HG002compoundhet | homalt | 99.2787 | 99.5826 | 98.9767 | 38.6655 | 10737 | 45 | 10736 | 111 | 91 | 81.9820 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1995 | 98.5461 | 99.8616 | 38.6640 | 2169 | 32 | 2164 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | tv | func_cds | * | 99.7367 | 99.6568 | 99.8166 | 38.6616 | 4356 | 15 | 4355 | 8 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | * | hetalt | 96.6724 | 93.6886 | 99.8525 | 38.6610 | 1811 | 122 | 2031 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 88.4669 | 80.2296 | 98.5893 | 38.6538 | 629 | 155 | 629 | 9 | 8 | 88.8889 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1405 | 98.5558 | 99.7323 | 38.6532 | 2252 | 33 | 2235 | 6 | 1 | 16.6667 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6800 | 99.8524 | 97.5347 | 38.6336 | 7441 | 11 | 7438 | 188 | 3 | 1.5957 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1890 | 91.6575 | 99.0035 | 38.6331 | 1670 | 152 | 1689 | 17 | 16 | 94.1176 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6618 | 93.5550 | 99.9821 | 38.6326 | 5516 | 380 | 5573 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6618 | 93.5550 | 99.9821 | 38.6326 | 5516 | 380 | 5573 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | HG002complexvar | hetalt | 99.5146 | 99.0338 | 100.0000 | 38.6228 | 205 | 2 | 205 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6688 | 93.6820 | 99.8523 | 38.6219 | 1809 | 122 | 2028 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6688 | 93.6820 | 99.8523 | 38.6219 | 1809 | 122 | 2028 | 3 | 3 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 93.3626 | 97.9878 | 89.1544 | 38.6200 | 7207 | 148 | 7201 | 876 | 61 | 6.9635 | |
| hfeng-pmm3 | INDEL | I6_15 | * | hetalt | 96.4340 | 93.1353 | 99.9750 | 38.6184 | 7964 | 587 | 8004 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 60.7416 | 67.9902 | 54.8896 | 38.6127 | 2226 | 1048 | 3755 | 3086 | 2432 | 78.8075 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0226 | 86.5506 | 98.2332 | 38.6117 | 547 | 85 | 556 | 10 | 9 | 90.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9237 | 99.8474 | 100.0000 | 38.6097 | 1309 | 2 | 1307 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | * | * | 44.4248 | 38.7222 | 52.0973 | 38.6048 | 9612 | 15211 | 9514 | 8748 | 6474 | 74.0055 | |
| gduggal-bwafb | INDEL | * | func_cds | * | 95.8862 | 94.1573 | 97.6798 | 38.6040 | 419 | 26 | 421 | 10 | 8 | 80.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.0231 | 94.1723 | 93.8743 | 38.5973 | 1519 | 94 | 8260 | 539 | 525 | 97.4026 | |
| anovak-vg | INDEL | * | func_cds | * | 81.4334 | 80.2247 | 82.6790 | 38.5816 | 357 | 88 | 358 | 75 | 54 | 72.0000 | |
| gduggal-snapvard | INDEL | D6_15 | * | homalt | 45.1606 | 30.1454 | 89.9777 | 38.5773 | 1907 | 4419 | 1616 | 180 | 176 | 97.7778 | |
| egarrison-hhga | INDEL | D1_5 | func_cds | het | 99.4152 | 100.0000 | 98.8372 | 38.5714 | 85 | 0 | 85 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | func_cds | * | 97.6744 | 97.6744 | 97.6744 | 38.5714 | 42 | 1 | 42 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | func_cds | * | 97.6744 | 97.6744 | 97.6744 | 38.5714 | 42 | 1 | 42 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | func_cds | * | 97.6744 | 97.6744 | 97.6744 | 38.5714 | 42 | 1 | 42 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.4555 | 96.9512 | 97.9651 | 38.5714 | 318 | 10 | 337 | 7 | 5 | 71.4286 | |