PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59751-59800 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6924 | 96.0989 | 95.2894 | 42.1888 | 6454 | 262 | 6453 | 319 | 300 | 94.0439 | |
| mlin-fermikit | INDEL | D16_PLUS | * | homalt | 91.6240 | 96.0993 | 87.5470 | 75.8209 | 1626 | 66 | 1631 | 232 | 206 | 88.7931 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.7847 | 96.0993 | 93.5056 | 43.8048 | 9953 | 404 | 9949 | 691 | 301 | 43.5601 | |
| gduggal-snapvard | SNP | tv | map_l100_m0_e0 | homalt | 97.9071 | 96.0998 | 99.7837 | 64.7675 | 3696 | 150 | 3690 | 8 | 5 | 62.5000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 79.7448 | 96.1003 | 68.1467 | 47.3577 | 345 | 14 | 353 | 165 | 141 | 85.4545 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.4168 | 96.1004 | 75.2662 | 52.8425 | 14047 | 570 | 14984 | 4924 | 4785 | 97.1771 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | homalt | 97.8972 | 96.1009 | 99.7619 | 89.4393 | 419 | 17 | 419 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | SNP | ti | map_l250_m0_e0 | homalt | 97.7830 | 96.1009 | 99.5249 | 92.4308 | 419 | 17 | 419 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | SNP | ti | map_l250_m0_e0 | homalt | 97.7830 | 96.1009 | 99.5249 | 93.5021 | 419 | 17 | 419 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | * | 96.2111 | 96.1025 | 96.3199 | 76.8067 | 29416 | 1193 | 29419 | 1124 | 527 | 46.8861 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | het | 82.4518 | 96.1039 | 72.1960 | 92.0188 | 888 | 36 | 1223 | 471 | 147 | 31.2102 | |
| bgallagher-sentieon | SNP | * | tech_badpromoters | het | 98.0132 | 96.1039 | 100.0000 | 51.6340 | 74 | 3 | 74 | 0 | 0 | ||
| jpowers-varprowl | SNP | * | tech_badpromoters | het | 91.9255 | 96.1039 | 88.0952 | 62.9956 | 74 | 3 | 74 | 10 | 1 | 10.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | het | 98.0132 | 96.1039 | 100.0000 | 48.2517 | 74 | 3 | 74 | 0 | 0 | ||
| ckim-dragen | SNP | * | tech_badpromoters | het | 98.0132 | 96.1039 | 100.0000 | 39.3443 | 74 | 3 | 74 | 0 | 0 | ||
| raldana-dualsentieon | SNP | * | tech_badpromoters | het | 98.0132 | 96.1039 | 100.0000 | 46.3768 | 74 | 3 | 74 | 0 | 0 | ||
| gduggal-snapvard | SNP | ti | map_l150_m2_e0 | * | 92.6480 | 96.1047 | 89.4313 | 82.4164 | 19713 | 799 | 19530 | 2308 | 189 | 8.1889 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.1174 | 96.1050 | 96.1298 | 45.0129 | 2196 | 89 | 2459 | 99 | 35 | 35.3535 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 81.1357 | 96.1059 | 70.2007 | 87.2590 | 2542 | 103 | 2589 | 1099 | 4 | 0.3640 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.7083 | 96.1066 | 99.3644 | 68.5333 | 469 | 19 | 469 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | SNP | * | map_l125_m1_e0 | homalt | 97.9102 | 96.1077 | 99.7817 | 66.1808 | 16247 | 658 | 15999 | 35 | 27 | 77.1429 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.3676 | 96.1079 | 96.6286 | 54.1432 | 24372 | 987 | 24047 | 839 | 436 | 51.9666 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m0_e0 | het | 97.4281 | 96.1083 | 98.7847 | 80.3413 | 568 | 23 | 569 | 7 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m0_e0 | het | 97.5107 | 96.1083 | 98.9547 | 73.4013 | 568 | 23 | 568 | 6 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e1 | * | 96.5509 | 96.1084 | 96.9975 | 95.6629 | 1383 | 56 | 1906 | 59 | 42 | 71.1864 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.6431 | 96.1084 | 99.2277 | 42.1750 | 10002 | 405 | 15032 | 117 | 72 | 61.5385 | |
| gduggal-snapfb | INDEL | D1_5 | map_l150_m2_e0 | het | 94.7138 | 96.1089 | 93.3586 | 86.7121 | 494 | 20 | 492 | 35 | 5 | 14.2857 | |
| ndellapenna-hhga | INDEL | * | map_l150_m0_e0 | * | 96.5844 | 96.1089 | 97.0646 | 99.2093 | 494 | 20 | 496 | 15 | 5 | 33.3333 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l150_m2_e0 | het | 97.5340 | 96.1089 | 99.0020 | 86.1869 | 494 | 20 | 496 | 5 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e0 | homalt | 97.9110 | 96.1094 | 99.7816 | 68.5446 | 16699 | 676 | 16446 | 36 | 28 | 77.7778 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.0017 | 96.1098 | 99.9695 | 34.1855 | 6547 | 265 | 6563 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.9505 | 96.1106 | 97.8051 | 88.0870 | 1112 | 45 | 1114 | 25 | 5 | 20.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | * | 97.0316 | 96.1110 | 97.9699 | 70.7650 | 6129 | 248 | 6129 | 127 | 100 | 78.7402 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.8784 | 96.1111 | 99.7118 | 87.9785 | 692 | 28 | 692 | 2 | 2 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l100_m2_e1 | homalt | 97.0093 | 96.1111 | 97.9245 | 77.2337 | 519 | 21 | 519 | 11 | 6 | 54.5455 | |
| eyeh-varpipe | INDEL | * | map_l150_m1_e0 | * | 96.5735 | 96.1136 | 97.0378 | 95.4187 | 1286 | 52 | 1769 | 54 | 37 | 68.5185 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m0_e0 | het | 97.8147 | 96.1145 | 99.5761 | 59.9585 | 4230 | 171 | 4228 | 18 | 3 | 16.6667 | |
| cchapple-custom | SNP | ti | map_l125_m0_e0 | het | 95.6528 | 96.1152 | 95.1947 | 80.1979 | 7942 | 321 | 7944 | 401 | 119 | 29.6758 | |
| dgrover-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6522 | 96.1165 | 95.1923 | 90.4324 | 99 | 4 | 99 | 5 | 1 | 20.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m1_e0 | * | 96.2856 | 96.1165 | 96.4552 | 81.4147 | 1287 | 52 | 2068 | 76 | 58 | 76.3158 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6522 | 96.1165 | 95.1923 | 89.3443 | 99 | 4 | 99 | 5 | 1 | 20.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l100_m0_e0 | * | 97.0588 | 96.1165 | 98.0198 | 86.6755 | 99 | 4 | 99 | 2 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | map_l150_m2_e0 | het | 97.6995 | 96.1165 | 99.3355 | 90.0232 | 297 | 12 | 299 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | map_siren | het | 97.4658 | 96.1180 | 98.8519 | 76.2761 | 4333 | 175 | 4305 | 50 | 3 | 6.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.5683 | 96.1187 | 75.4960 | 75.8909 | 842 | 34 | 761 | 247 | 247 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | HG002complexvar | hetalt | 97.7444 | 96.1194 | 99.4253 | 68.9563 | 322 | 13 | 346 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.8202 | 96.1199 | 99.5818 | 26.2339 | 5227 | 211 | 5239 | 22 | 22 | 100.0000 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | het | 82.7367 | 96.1200 | 72.6248 | 92.6041 | 3171 | 128 | 3157 | 1190 | 66 | 5.5462 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | * | 92.6900 | 96.1203 | 89.4961 | 82.4891 | 19919 | 804 | 19733 | 2316 | 191 | 8.2470 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.7884 | 96.1222 | 99.5134 | 88.6370 | 818 | 33 | 818 | 4 | 4 | 100.0000 | |