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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41351-41400 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 96.0000 | 100.0000 | 92.3077 | 99.4477 | 10 | 0 | 12 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | * | 66.6667 | 66.6667 | 66.6667 | 99.5787 | 2 | 1 | 2 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_gt200bp_gt95identity_merged | het | 80.0000 | 100.0000 | 66.6667 | 97.3214 | 2 | 0 | 2 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | map_l100_m0_e0 | hetalt | 80.4899 | 69.6970 | 95.2381 | 93.4375 | 23 | 10 | 20 | 1 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | hetalt | 87.0715 | 79.0698 | 96.8750 | 94.1392 | 34 | 9 | 31 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9524 | 70.8333 | 94.4444 | 73.9130 | 17 | 7 | 17 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 87.5304 | 79.5455 | 97.2973 | 66.0550 | 35 | 9 | 36 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 63.0114 | 46.2366 | 98.8889 | 64.0000 | 86 | 100 | 89 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 70.8861 | 57.1429 | 93.3333 | 87.7049 | 20 | 15 | 14 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | * | 55.3459 | 38.5965 | 97.7778 | 90.5462 | 44 | 70 | 44 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | het | 57.1133 | 40.6780 | 95.8333 | 92.5697 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | * | 56.4417 | 39.6552 | 97.8723 | 91.1488 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | het | 59.0641 | 42.6230 | 96.1538 | 92.8177 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | * | 56.4417 | 39.6552 | 97.8723 | 91.2639 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | het | 59.0641 | 42.6230 | 96.1538 | 92.8767 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | het | 65.4206 | 48.9510 | 98.5915 | 87.8425 | 70 | 73 | 70 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | hetalt | 68.4843 | 52.7778 | 97.5000 | 75.4601 | 38 | 34 | 39 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | homalt | 55.5556 | 38.8889 | 97.2222 | 80.4348 | 35 | 55 | 35 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7618 | 93.7850 | 99.9338 | 39.2110 | 1509 | 100 | 1509 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 96.8750 | 93.9737 | 99.9612 | 23.5381 | 2573 | 165 | 2575 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | map_l250_m0_e0 | homalt | 60.9272 | 43.8792 | 99.6390 | 88.3516 | 276 | 353 | 276 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | segdup | homalt | 98.1370 | 96.3511 | 99.9903 | 85.3967 | 10351 | 392 | 10351 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | tech_badpromoters | * | 93.2432 | 87.8981 | 99.2806 | 31.5271 | 138 | 19 | 138 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | * | tech_badpromoters | het | 91.6667 | 85.7143 | 98.5075 | 37.9630 | 66 | 11 | 66 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.5644 | 93.4397 | 99.9052 | 38.7696 | 1054 | 74 | 1054 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.9804 | 94.2019 | 99.9277 | 38.3793 | 1381 | 85 | 1383 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.5553 | 95.3380 | 99.8782 | 41.5658 | 818 | 40 | 820 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.0000 | 50.0000 | 88.8889 | 96.9697 | 8 | 8 | 8 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | het | 42.8571 | 30.0000 | 75.0000 | 98.2143 | 3 | 7 | 3 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.3145 | 96.7288 | 99.9531 | 38.9223 | 2129 | 72 | 2130 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.0365 | 96.2158 | 99.9273 | 21.3265 | 1373 | 54 | 1375 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | homalt | 62.5786 | 45.6422 | 99.5000 | 87.4451 | 199 | 237 | 199 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.6513 | 93.6387 | 99.8643 | 55.3874 | 736 | 50 | 736 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 96.7615 | 93.9048 | 99.7976 | 61.1635 | 493 | 32 | 493 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | tv | map_l150_m1_e0 | homalt | 59.4623 | 42.3213 | 99.9402 | 68.6492 | 1670 | 2276 | 1670 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l150_m2_e0 | homalt | 59.9931 | 42.8606 | 99.9429 | 72.5764 | 1750 | 2333 | 1750 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | map_l150_m2_e1 | homalt | 60.1387 | 43.0092 | 99.9438 | 72.5081 | 1778 | 2356 | 1778 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | segdup | homalt | 97.8395 | 95.7999 | 99.9678 | 86.9397 | 3102 | 136 | 3102 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | tech_badpromoters | * | 94.9640 | 91.6667 | 98.5075 | 27.9570 | 66 | 6 | 66 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | tv | tech_badpromoters | het | 95.3846 | 93.9394 | 96.8750 | 30.4348 | 31 | 2 | 31 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | func_cds | homalt | 99.7792 | 100.0000 | 99.5595 | 39.4667 | 226 | 0 | 226 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 95.0000 | 95.0000 | 95.0000 | 99.3932 | 19 | 1 | 19 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 80.0000 | 80.0000 | 80.0000 | 99.5362 | 4 | 1 | 4 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 94.1176 | 94.1176 | 94.1176 | 99.4642 | 16 | 1 | 16 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | homalt | 75.0000 | 75.0000 | 75.0000 | 99.6201 | 3 | 1 | 3 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 94.8354 | 90.5579 | 99.5370 | 73.1009 | 211 | 22 | 215 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 95.2817 | 91.6667 | 99.1935 | 77.0370 | 121 | 11 | 123 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 98.4617 | 97.0748 | 99.8889 | 26.7101 | 896 | 27 | 899 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l250_m0_e0 | homalt | 96.0000 | 96.0000 | 96.0000 | 97.7085 | 24 | 1 | 24 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | map_l250_m1_e0 | homalt | 98.6175 | 98.1651 | 99.0741 | 95.2880 | 107 | 2 | 107 | 1 | 1 | 100.0000 | |