PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41851-41900 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | * | map_l250_m1_e0 | het | 69.6080 | 54.2105 | 97.2222 | 97.4636 | 103 | 87 | 105 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 69.6084 | 54.3247 | 96.8586 | 71.6196 | 358 | 301 | 370 | 12 | 11 | 91.6667 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 69.6084 | 54.3247 | 96.8586 | 71.6196 | 358 | 301 | 370 | 12 | 11 | 91.6667 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | het | 69.6130 | 53.4647 | 99.7375 | 84.2187 | 1520 | 1323 | 1520 | 4 | 1 | 25.0000 | |
| ckim-vqsr | SNP | ti | map_l250_m2_e0 | het | 69.6152 | 53.9336 | 98.1544 | 97.0778 | 1755 | 1499 | 1755 | 33 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 69.6175 | 73.0888 | 66.4609 | 58.6501 | 2849 | 1049 | 4092 | 2065 | 1377 | 66.6828 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 69.6183 | 92.3077 | 55.8824 | 66.9903 | 12 | 1 | 19 | 15 | 14 | 93.3333 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 69.6305 | 59.6491 | 83.6237 | 65.9953 | 238 | 161 | 240 | 47 | 45 | 95.7447 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.6311 | 53.4267 | 99.9443 | 78.9757 | 3586 | 3126 | 3586 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m0_e0 | * | 69.6335 | 53.6290 | 99.2537 | 95.9184 | 266 | 230 | 266 | 2 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 69.6394 | 53.9936 | 98.0519 | 57.5172 | 169 | 144 | 302 | 6 | 6 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_siren | hetalt | 69.6629 | 54.3860 | 96.8750 | 86.4407 | 31 | 26 | 31 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | homalt | 69.6665 | 53.4731 | 99.9279 | 52.0793 | 4157 | 3617 | 4157 | 3 | 3 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_siren | homalt | 69.6721 | 71.4286 | 68.0000 | 85.3801 | 15 | 6 | 17 | 8 | 1 | 12.5000 | |
| ciseli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 69.6749 | 94.4284 | 55.2038 | 82.9047 | 3915 | 231 | 3941 | 3198 | 130 | 4.0650 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 69.6774 | 79.4118 | 62.0690 | 95.4946 | 54 | 14 | 54 | 33 | 3 | 9.0909 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 69.6812 | 67.0967 | 72.4727 | 44.4064 | 25431 | 12471 | 36677 | 13931 | 13653 | 98.0045 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 69.6845 | 73.4336 | 66.2996 | 51.5475 | 293 | 106 | 301 | 153 | 102 | 66.6667 | |
| ckim-gatk | SNP | tv | map_l250_m2_e1 | * | 69.6890 | 54.5610 | 96.4242 | 96.4387 | 1591 | 1325 | 1591 | 59 | 1 | 1.6949 | |
| ciseli-custom | SNP | ti | map_l250_m0_e0 | * | 69.6954 | 66.4234 | 73.3065 | 95.3499 | 910 | 460 | 909 | 331 | 59 | 17.8248 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 69.6970 | 97.1831 | 54.3307 | 50.1961 | 69 | 2 | 69 | 58 | 58 | 100.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 69.6970 | 56.0976 | 92.0000 | 93.0939 | 23 | 18 | 23 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | HG002compoundhet | * | 69.7015 | 65.9174 | 73.9466 | 36.0645 | 5953 | 3078 | 5949 | 2096 | 2075 | 98.9981 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.7158 | 58.9124 | 85.3712 | 87.1924 | 390 | 272 | 391 | 67 | 8 | 11.9403 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 69.7183 | 56.2500 | 91.6667 | 74.4681 | 9 | 7 | 11 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | ti | map_l250_m1_e0 | * | 69.7263 | 54.2477 | 97.5648 | 96.1076 | 2484 | 2095 | 2484 | 62 | 7 | 11.2903 | |
| ckim-isaac | INDEL | * | map_l250_m2_e0 | het | 69.7358 | 54.2857 | 97.4790 | 97.5555 | 114 | 96 | 116 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | hetalt | 69.7368 | 53.5354 | 100.0000 | 90.6028 | 53 | 46 | 53 | 0 | 0 | ||
| ckim-vqsr | SNP | tv | map_l125_m2_e0 | * | 69.7523 | 53.9693 | 98.5819 | 89.6043 | 8899 | 7590 | 8898 | 128 | 1 | 0.7813 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.7634 | 77.7946 | 63.2353 | 72.2165 | 515 | 147 | 516 | 300 | 115 | 38.3333 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | het | 69.7650 | 53.9859 | 98.5774 | 56.8653 | 8323 | 7094 | 8315 | 120 | 2 | 1.6667 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m2_e0 | het | 69.7674 | 83.3333 | 60.0000 | 94.2857 | 5 | 1 | 6 | 4 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m2_e1 | het | 69.7674 | 83.3333 | 60.0000 | 94.3182 | 5 | 1 | 6 | 4 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 69.7674 | 83.3333 | 60.0000 | 98.9806 | 5 | 1 | 6 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | INDEL | * | func_cds | hetalt | 69.7674 | 60.0000 | 83.3333 | 72.7273 | 3 | 2 | 5 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l250_m2_e1 | het | 69.7793 | 54.1376 | 98.1319 | 97.0902 | 1786 | 1513 | 1786 | 34 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 69.7822 | 60.7755 | 81.9227 | 56.9113 | 1630 | 1052 | 784 | 173 | 149 | 86.1272 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 69.7828 | 56.1178 | 92.2449 | 67.9389 | 1353 | 1058 | 1356 | 114 | 34 | 29.8246 | |
| ckim-gatk | SNP | ti | map_l250_m1_e0 | * | 69.7981 | 54.3568 | 97.4931 | 96.0316 | 2489 | 2090 | 2489 | 64 | 8 | 12.5000 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 69.7987 | 80.0000 | 61.9048 | 99.5263 | 16 | 4 | 13 | 8 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.8019 | 55.0659 | 95.3064 | 79.2366 | 1462 | 1193 | 1462 | 72 | 30 | 41.6667 | |
| gduggal-snapvard | INDEL | I6_15 | func_cds | het | 69.8061 | 87.5000 | 58.0645 | 43.6364 | 21 | 3 | 18 | 13 | 12 | 92.3077 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | * | 69.8181 | 53.9590 | 98.8800 | 88.0425 | 24458 | 20869 | 24455 | 277 | 5 | 1.8051 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 69.8222 | 55.2833 | 94.7368 | 83.6277 | 361 | 292 | 360 | 20 | 16 | 80.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 69.8225 | 67.8161 | 71.9512 | 99.9249 | 59 | 28 | 59 | 23 | 15 | 65.2174 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 69.8249 | 55.6650 | 93.6464 | 87.2714 | 339 | 270 | 339 | 23 | 17 | 73.9130 | |
| anovak-vg | INDEL | D6_15 | map_l100_m1_e0 | * | 69.8276 | 62.7907 | 78.6408 | 85.3172 | 162 | 96 | 162 | 44 | 27 | 61.3636 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.8290 | 73.2103 | 66.7462 | 59.7115 | 992 | 363 | 839 | 418 | 413 | 98.8038 | |