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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67201-67250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.7920 | 99.4303 | 96.2068 | 45.3054 | 10298 | 59 | 10906 | 430 | 320 | 74.4186 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7927 | 97.6562 | 97.9295 | 69.6398 | 1750 | 42 | 1750 | 37 | 33 | 89.1892 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.7933 | 97.8680 | 97.7188 | 57.0996 | 2387 | 52 | 2356 | 55 | 6 | 10.9091 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7933 | 96.5102 | 99.1110 | 60.0852 | 15210 | 550 | 15051 | 135 | 117 | 86.6667 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | * | 97.7935 | 97.5281 | 98.0604 | 98.3524 | 2170 | 55 | 2174 | 43 | 15 | 34.8837 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m0_e0 | * | 97.7938 | 98.1855 | 97.4052 | 89.6850 | 487 | 9 | 488 | 13 | 3 | 23.0769 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m2_e1 | * | 97.7940 | 96.5393 | 99.0817 | 82.5509 | 2148 | 77 | 2158 | 20 | 1 | 5.0000 | |
| ndellapenna-hhga | SNP | ti | map_l250_m2_e0 | het | 97.7952 | 96.0971 | 99.5543 | 88.3585 | 3127 | 127 | 3127 | 14 | 6 | 42.8571 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l150_m1_e0 | het | 97.7952 | 96.3211 | 99.3151 | 89.0923 | 288 | 11 | 290 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | I1_5 | * | * | 97.7958 | 96.8327 | 98.7782 | 55.3353 | 145892 | 4772 | 145850 | 1804 | 1184 | 65.6319 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e0 | homalt | 97.7959 | 95.9060 | 99.7619 | 75.2353 | 10893 | 465 | 10894 | 26 | 14 | 53.8462 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7960 | 96.0049 | 99.6553 | 58.3497 | 5503 | 229 | 5493 | 19 | 12 | 63.1579 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7961 | 99.2900 | 96.3466 | 63.0116 | 1818 | 13 | 1846 | 70 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7963 | 98.1618 | 97.4335 | 57.5156 | 1068 | 20 | 1063 | 28 | 24 | 85.7143 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | het | 97.7971 | 97.8463 | 97.7479 | 82.8433 | 7769 | 171 | 7769 | 179 | 54 | 30.1676 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m0_e0 | homalt | 97.7974 | 97.3684 | 98.2301 | 84.0395 | 111 | 3 | 111 | 2 | 1 | 50.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.7974 | 96.2428 | 99.4030 | 77.3801 | 333 | 13 | 333 | 2 | 1 | 50.0000 | |
| gduggal-snapfb | SNP | tv | map_siren | het | 97.7974 | 98.9374 | 96.6834 | 63.5849 | 28305 | 304 | 28306 | 971 | 266 | 27.3944 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.7987 | 95.6923 | 100.0000 | 23.4223 | 622 | 28 | 631 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.7987 | 95.6923 | 100.0000 | 22.5767 | 622 | 28 | 631 | 0 | 0 | ||
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7995 | 96.8208 | 98.7981 | 64.4748 | 335 | 11 | 411 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.7996 | 97.7237 | 97.8756 | 64.8324 | 1889 | 44 | 1889 | 41 | 41 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8001 | 97.9911 | 97.6098 | 69.6269 | 1756 | 36 | 1756 | 43 | 31 | 72.0930 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8004 | 97.8301 | 97.7707 | 70.7090 | 1578 | 35 | 1535 | 35 | 26 | 74.2857 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8006 | 97.5318 | 98.0707 | 78.8291 | 1225 | 31 | 1220 | 24 | 7 | 29.1667 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.8007 | 99.6434 | 96.0249 | 44.6210 | 2794 | 10 | 2778 | 115 | 115 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8008 | 96.2364 | 99.4170 | 63.5191 | 5114 | 200 | 5116 | 30 | 22 | 73.3333 | |
| gduggal-snapfb | SNP | ti | map_l100_m2_e1 | * | 97.8010 | 97.7367 | 97.8655 | 68.4763 | 48365 | 1120 | 48370 | 1055 | 457 | 43.3175 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e0 | homalt | 97.8012 | 96.0000 | 99.6714 | 76.3723 | 16680 | 695 | 16681 | 55 | 21 | 38.1818 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8013 | 97.5893 | 98.0142 | 45.3295 | 9230 | 228 | 9230 | 187 | 180 | 96.2567 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m2_e1 | * | 97.8015 | 95.9614 | 99.7136 | 84.0906 | 4871 | 205 | 4874 | 14 | 8 | 57.1429 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8021 | 99.7736 | 95.9069 | 61.4948 | 11458 | 26 | 11458 | 489 | 478 | 97.7505 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8022 | 98.1618 | 97.4453 | 67.6027 | 1068 | 20 | 1068 | 28 | 24 | 85.7143 | |
| hfeng-pmm2 | INDEL | I6_15 | map_siren | homalt | 97.8022 | 98.8889 | 96.7391 | 84.1105 | 89 | 1 | 89 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | het | 97.8027 | 98.0132 | 97.5930 | 91.8342 | 888 | 18 | 892 | 22 | 3 | 13.6364 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e0 | * | 97.8027 | 97.2222 | 98.3901 | 85.9597 | 2135 | 61 | 2139 | 35 | 6 | 17.1429 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.8028 | 97.6785 | 97.9275 | 46.3889 | 7279 | 173 | 7182 | 152 | 45 | 29.6053 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e1 | het | 97.8030 | 96.8417 | 98.7837 | 83.8513 | 2269 | 74 | 2274 | 28 | 4 | 14.2857 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8033 | 97.6268 | 97.9804 | 52.5687 | 10819 | 263 | 10819 | 223 | 219 | 98.2063 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.8035 | 95.8873 | 99.7978 | 64.0929 | 2961 | 127 | 2961 | 6 | 4 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 97.8051 | 97.2973 | 98.3182 | 81.2333 | 756 | 21 | 760 | 13 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l150_m2_e1 | * | 97.8058 | 97.3008 | 98.3161 | 87.6421 | 757 | 21 | 759 | 13 | 4 | 30.7692 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8063 | 97.1411 | 98.4806 | 47.1994 | 17737 | 522 | 17759 | 274 | 239 | 87.2263 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8068 | 96.9376 | 98.6918 | 81.5857 | 2564 | 81 | 2565 | 34 | 13 | 38.2353 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.8070 | 99.7711 | 95.9189 | 66.2738 | 3922 | 9 | 3925 | 167 | 16 | 9.5808 | |
| jli-custom | SNP | ti | map_l250_m2_e1 | het | 97.8071 | 96.6657 | 98.9758 | 87.5900 | 3189 | 110 | 3189 | 33 | 16 | 48.4848 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m1_e0 | * | 97.8071 | 96.3738 | 99.2837 | 81.2818 | 691 | 26 | 693 | 5 | 1 | 20.0000 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.8073 | 97.0976 | 98.5274 | 67.7670 | 1472 | 44 | 1472 | 22 | 11 | 50.0000 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e1 | * | 97.8083 | 97.2135 | 98.4105 | 86.0853 | 2163 | 62 | 2167 | 35 | 6 | 17.1429 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8086 | 98.8224 | 96.8153 | 66.1962 | 13595 | 162 | 13589 | 447 | 406 | 90.8277 | |