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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53351-53400 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 88.8889 | 100.0000 | 80.0000 | 91.8033 | 4 | 0 | 4 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2107 | 98.8095 | 97.6190 | 79.0524 | 166 | 2 | 164 | 4 | 1 | 25.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9011 | 100.0000 | 97.8261 | 83.7456 | 45 | 0 | 45 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.2201 | 83.9465 | 99.8737 | 37.5887 | 753 | 144 | 791 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6855 | 99.5812 | 99.7901 | 80.3667 | 951 | 4 | 951 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2944 | 92.8778 | 99.9719 | 25.4138 | 3534 | 271 | 3559 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.7206 | 65.5340 | 98.5507 | 56.6038 | 135 | 71 | 136 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 76.3320 | 62.0112 | 99.2537 | 24.2938 | 111 | 68 | 133 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.9805 | 88.9241 | 99.6466 | 70.1162 | 281 | 35 | 282 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3668 | 91.8216 | 99.1968 | 76.6417 | 247 | 22 | 247 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 66.6667 | 100.0000 | 50.0000 | 98.4000 | 1 | 0 | 1 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6807 | 99.5745 | 99.7872 | 69.5003 | 468 | 2 | 469 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0881 | 98.3269 | 95.8801 | 89.2469 | 764 | 13 | 768 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 97.1459 | 98.3607 | 95.9608 | 90.0195 | 780 | 13 | 784 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | het | 97.2049 | 98.3951 | 96.0432 | 90.0501 | 797 | 13 | 801 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 96.5689 | 98.1481 | 95.0397 | 91.4793 | 477 | 9 | 479 | 25 | 1 | 4.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e0 | het | 96.5482 | 98.1891 | 94.9612 | 92.2054 | 488 | 9 | 490 | 26 | 1 | 3.8462 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 96.6215 | 98.2283 | 95.0664 | 92.2237 | 499 | 9 | 501 | 26 | 1 | 3.8462 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 95.4471 | 97.6589 | 93.3333 | 93.6299 | 292 | 7 | 294 | 21 | 1 | 4.7619 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 95.5905 | 97.7346 | 93.5385 | 94.1746 | 302 | 7 | 304 | 21 | 1 | 4.7619 | |
| ckim-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 95.6989 | 97.7918 | 93.6937 | 94.1905 | 310 | 7 | 312 | 21 | 1 | 4.7619 | |
| ckim-gatk | INDEL | I1_5 | map_l250_m0_e0 | * | 86.2745 | 91.6667 | 81.4815 | 98.6855 | 22 | 2 | 22 | 5 | 1 | 20.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l250_m0_e0 | homalt | 94.7368 | 100.0000 | 90.0000 | 96.9880 | 9 | 0 | 9 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | func_cds | * | 97.6744 | 97.6744 | 97.6744 | 41.0959 | 42 | 1 | 42 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | func_cds | homalt | 96.7742 | 100.0000 | 93.7500 | 40.7407 | 15 | 0 | 15 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.8037 | 88.4906 | 99.7955 | 45.1178 | 469 | 61 | 488 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.4595 | 100.0000 | 98.9247 | 70.0000 | 92 | 0 | 92 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 94.0377 | 88.9807 | 99.7041 | 43.6667 | 323 | 40 | 337 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.9506 | 73.9130 | 97.1429 | 57.8313 | 68 | 24 | 68 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4015 | 72.2892 | 98.5507 | 28.8660 | 60 | 23 | 68 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m0_e0 | * | 92.3077 | 90.9091 | 93.7500 | 93.5223 | 30 | 3 | 30 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m0_e0 | het | 91.4286 | 94.1176 | 88.8889 | 94.6903 | 16 | 1 | 16 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m1_e0 | * | 96.4602 | 95.6140 | 97.3214 | 89.5814 | 109 | 5 | 109 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m1_e0 | het | 95.7983 | 96.6102 | 95.0000 | 91.2152 | 57 | 2 | 57 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e0 | * | 96.5217 | 95.6897 | 97.3684 | 90.3635 | 111 | 5 | 111 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e0 | het | 95.9350 | 96.7213 | 95.1613 | 91.7663 | 59 | 2 | 59 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | * | 96.5217 | 95.6897 | 97.3684 | 90.5863 | 111 | 5 | 111 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l100_m2_e1 | het | 95.9350 | 96.7213 | 95.1613 | 91.9585 | 59 | 2 | 59 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m0_e0 | * | 86.6667 | 86.6667 | 86.6667 | 96.0212 | 13 | 2 | 13 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m0_e0 | het | 84.2105 | 88.8889 | 80.0000 | 96.2264 | 8 | 1 | 8 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m1_e0 | * | 93.3333 | 92.4528 | 94.2308 | 93.2292 | 49 | 4 | 49 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m1_e0 | het | 91.8033 | 93.3333 | 90.3226 | 93.9216 | 28 | 2 | 28 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m2_e0 | * | 93.3333 | 92.4528 | 94.2308 | 94.0092 | 49 | 4 | 49 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m2_e0 | het | 91.8033 | 93.3333 | 90.3226 | 94.5899 | 28 | 2 | 28 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m2_e1 | * | 93.3333 | 92.4528 | 94.2308 | 94.1573 | 49 | 4 | 49 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l125_m2_e1 | het | 91.8033 | 93.3333 | 90.3226 | 94.7189 | 28 | 2 | 28 | 3 | 1 | 33.3333 | |
| ckim-gatk | INDEL | I6_15 | map_l150_m0_e0 | * | 87.5000 | 87.5000 | 87.5000 | 97.4922 | 7 | 1 | 7 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | map_l150_m0_e0 | het | 88.8889 | 100.0000 | 80.0000 | 97.8166 | 4 | 0 | 4 | 1 | 1 | 100.0000 | |