PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42801-42850 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.0142 | 96.9697 | 97.0588 | 74.4361 | 32 | 1 | 33 | 1 | 1 | 100.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 86.4073 | 86.7056 | 86.1111 | 74.4351 | 1337 | 205 | 1364 | 220 | 118 | 53.6364 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | het | 98.4237 | 97.9029 | 98.9501 | 74.4344 | 2661 | 57 | 2639 | 28 | 4 | 14.2857 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1776 | 96.3907 | 97.9775 | 74.4326 | 908 | 34 | 872 | 18 | 13 | 72.2222 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6778 | 99.6209 | 99.7347 | 74.4322 | 33110 | 126 | 33088 | 88 | 54 | 61.3636 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.8240 | 87.8505 | 98.3945 | 74.4282 | 470 | 65 | 429 | 7 | 7 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.0894 | 90.4040 | 91.7852 | 74.4242 | 1969 | 209 | 1743 | 156 | 147 | 94.2308 | |
| astatham-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5289 | 99.9220 | 99.1388 | 74.4236 | 30737 | 24 | 30737 | 267 | 261 | 97.7528 | |
| jpowers-varprowl | SNP | * | map_l150_m1_e0 | homalt | 98.9052 | 98.1726 | 99.6488 | 74.4202 | 11067 | 206 | 11067 | 39 | 26 | 66.6667 | |
| ltrigg-rtg2 | SNP | tv | map_l250_m2_e0 | het | 95.3430 | 91.2887 | 99.7743 | 74.4189 | 1771 | 169 | 1768 | 4 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 91.3043 | 87.5000 | 95.4545 | 74.4186 | 21 | 3 | 21 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| dgrover-gatk | INDEL | I16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| ckim-isaac | INDEL | D6_15 | map_l100_m0_e0 | homalt | 62.8571 | 45.8333 | 100.0000 | 74.4186 | 11 | 13 | 11 | 0 | 0 | ||
| astatham-gatk | INDEL | I16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | func_cds | * | 95.6522 | 91.6667 | 100.0000 | 74.4186 | 11 | 1 | 11 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 62.5000 | 47.6190 | 90.9091 | 74.4186 | 40 | 44 | 60 | 6 | 6 | 100.0000 | |
| ckim-dragen | SNP | ti | map_l125_m2_e0 | * | 98.4121 | 99.1176 | 97.7165 | 74.4145 | 29991 | 267 | 29998 | 701 | 81 | 11.5549 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5713 | 99.3652 | 99.7783 | 74.4113 | 3600 | 23 | 3600 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.2347 | 98.2481 | 96.2420 | 74.4091 | 8973 | 160 | 9117 | 356 | 12 | 3.3708 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.2347 | 98.2481 | 96.2420 | 74.4091 | 8973 | 160 | 9117 | 356 | 12 | 3.3708 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m2_e0 | het | 97.1444 | 94.8248 | 99.5802 | 74.4091 | 1191 | 65 | 1186 | 5 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7268 | 96.3470 | 99.1467 | 74.4062 | 1899 | 72 | 1859 | 16 | 8 | 50.0000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7413 | 99.9261 | 99.5572 | 74.4050 | 1352 | 1 | 1349 | 6 | 4 | 66.6667 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 91.9908 | 86.2661 | 98.5294 | 74.4040 | 201 | 32 | 201 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | SNP | ti | map_l125_m1_e0 | het | 99.0798 | 99.3430 | 98.8180 | 74.4018 | 18146 | 120 | 18142 | 217 | 33 | 15.2074 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | het | 96.0823 | 94.8235 | 97.3750 | 74.4000 | 806 | 44 | 779 | 21 | 5 | 23.8095 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 95.4545 | 92.6471 | 98.4375 | 74.4000 | 63 | 5 | 63 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | het | 95.7023 | 96.5643 | 94.8555 | 74.3999 | 11945 | 425 | 11948 | 648 | 334 | 51.5432 | |
| anovak-vg | SNP | ti | map_l125_m1_e0 | * | 81.2273 | 86.8110 | 76.3184 | 74.3923 | 25466 | 3869 | 25253 | 7836 | 1746 | 22.2818 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.8665 | 97.8284 | 93.9817 | 74.3916 | 30093 | 668 | 30045 | 1924 | 1880 | 97.7131 | |
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 90.4762 | 82.6087 | 100.0000 | 74.3902 | 19 | 4 | 21 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 96.8500 | 94.7664 | 99.0272 | 74.3896 | 507 | 28 | 509 | 5 | 4 | 80.0000 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | het | 98.7416 | 98.4694 | 99.0154 | 74.3882 | 7141 | 111 | 7140 | 71 | 19 | 26.7606 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 90.7407 | 83.0508 | 100.0000 | 74.3842 | 49 | 10 | 52 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3437 | 96.0575 | 98.6648 | 74.3831 | 2071 | 85 | 2069 | 28 | 19 | 67.8571 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.5646 | 99.1329 | 100.0000 | 74.3783 | 343 | 3 | 340 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4318 | 98.8701 | 100.0000 | 74.3777 | 175 | 2 | 175 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | het | 99.0978 | 99.2392 | 98.9567 | 74.3753 | 28176 | 216 | 28170 | 297 | 25 | 8.4175 | |
| gduggal-snapvard | SNP | ti | map_l100_m2_e1 | * | 95.1804 | 96.2979 | 94.0886 | 74.3752 | 47653 | 1832 | 47192 | 2965 | 284 | 9.5784 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.9729 | 96.4912 | 84.2795 | 74.3705 | 385 | 14 | 386 | 72 | 70 | 97.2222 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3333 | 100.0000 | 96.7213 | 74.3697 | 61 | 0 | 59 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 91.0387 | 84.9785 | 98.0296 | 74.3687 | 198 | 35 | 199 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | het | 98.4376 | 97.2165 | 99.6897 | 74.3678 | 8033 | 230 | 8033 | 25 | 12 | 48.0000 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | homalt | 85.5692 | 82.9537 | 88.3551 | 74.3676 | 3387 | 696 | 3384 | 446 | 347 | 77.8027 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | * | 99.1962 | 99.0044 | 99.3888 | 74.3664 | 19192 | 193 | 19189 | 118 | 33 | 27.9661 | |
| ciseli-custom | SNP | tv | map_l150_m2_e1 | homalt | 85.5896 | 82.9463 | 88.4069 | 74.3629 | 3429 | 705 | 3424 | 449 | 348 | 77.5056 | |