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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23651-23700 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1793 | 97.2561 | 99.1202 | 37.6600 | 319 | 9 | 338 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | SNP | ti | map_l250_m2_e0 | * | 99.0408 | 98.9617 | 99.1200 | 88.5996 | 4956 | 52 | 4956 | 44 | 10 | 22.7273 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | het | 98.6256 | 98.1363 | 99.1199 | 71.4709 | 8109 | 154 | 8109 | 72 | 25 | 34.7222 | |
| ckim-gatk | SNP | * | func_cds | het | 99.5225 | 99.9283 | 99.1199 | 36.5539 | 11153 | 8 | 11150 | 99 | 1 | 1.0101 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8948 | 98.6708 | 99.1198 | 73.7421 | 19598 | 264 | 19594 | 174 | 146 | 83.9080 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.4700 | 99.8227 | 99.1197 | 72.8749 | 563 | 1 | 563 | 5 | 5 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0356 | 96.9749 | 99.1197 | 80.1572 | 1122 | 35 | 1126 | 10 | 1 | 10.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.2500 | 97.3962 | 99.1189 | 63.9192 | 1571 | 42 | 1575 | 14 | 1 | 7.1429 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l150_m1_e0 | homalt | 98.9011 | 98.6842 | 99.1189 | 87.0949 | 225 | 3 | 225 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.2204 | 87.9845 | 99.1189 | 50.4367 | 227 | 31 | 225 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.5081 | 95.9488 | 99.1189 | 81.2706 | 450 | 19 | 450 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | D1_5 | map_l150_m1_e0 | homalt | 98.9011 | 98.6842 | 99.1189 | 87.9767 | 225 | 3 | 225 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 94.7368 | 90.7258 | 99.1189 | 89.1905 | 225 | 23 | 225 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1506 | 93.3555 | 99.1182 | 52.8678 | 562 | 40 | 562 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | SNP | * | HG002compoundhet | homalt | 98.0307 | 96.9672 | 99.1179 | 35.4971 | 10455 | 327 | 10450 | 93 | 5 | 5.3763 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1780 | 97.2561 | 99.1176 | 38.1818 | 319 | 9 | 337 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | het | 98.9817 | 98.8462 | 99.1176 | 59.3518 | 3084 | 36 | 3033 | 27 | 21 | 77.7778 | |
| qzeng-custom | INDEL | I1_5 | map_l125_m2_e1 | homalt | 81.4279 | 69.0962 | 99.1176 | 84.0450 | 237 | 106 | 337 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.9633 | 96.8354 | 99.1176 | 83.2016 | 306 | 10 | 337 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.2507 | 97.3988 | 99.1176 | 69.7509 | 337 | 9 | 337 | 3 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.2507 | 97.3988 | 99.1176 | 69.0064 | 337 | 9 | 337 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.2507 | 97.3988 | 99.1176 | 69.3969 | 337 | 9 | 337 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5336 | 99.9532 | 99.1175 | 38.8352 | 2137 | 1 | 2134 | 19 | 2 | 10.5263 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e0 | * | 99.3603 | 99.6045 | 99.1174 | 68.4796 | 24934 | 99 | 24930 | 222 | 31 | 13.9640 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m2_e0 | * | 73.8487 | 58.8467 | 99.1170 | 95.6820 | 449 | 314 | 449 | 4 | 1 | 25.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.8272 | 98.5395 | 99.1166 | 73.0877 | 63490 | 941 | 63503 | 566 | 450 | 79.5053 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.7226 | 63.9247 | 99.1164 | 40.0903 | 3769 | 2127 | 3814 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 77.7226 | 63.9247 | 99.1164 | 40.0903 | 3769 | 2127 | 3814 | 34 | 34 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | * | 94.7100 | 90.6791 | 99.1159 | 32.9210 | 7958 | 818 | 7848 | 70 | 64 | 91.4286 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e1 | * | 97.1606 | 95.2809 | 99.1159 | 83.1609 | 2120 | 105 | 2130 | 19 | 3 | 15.7895 | |
| raldana-dualsentieon | SNP | tv | map_l100_m0_e0 | * | 99.1204 | 99.1249 | 99.1158 | 68.4908 | 10987 | 97 | 10986 | 98 | 4 | 4.0816 | |
| jmaeng-gatk | INDEL | * | * | het | 99.3015 | 99.4880 | 99.1156 | 62.5254 | 193139 | 994 | 192770 | 1720 | 614 | 35.6977 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m2_e1 | * | 98.5749 | 98.0402 | 99.1155 | 82.3896 | 1901 | 38 | 1905 | 17 | 5 | 29.4118 | |
| raldana-dualsentieon | INDEL | D6_15 | map_l125_m1_e0 | * | 97.3913 | 95.7265 | 99.1150 | 87.6096 | 112 | 5 | 112 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m2_e1 | hetalt | 90.9869 | 84.0909 | 99.1150 | 91.3476 | 111 | 21 | 112 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | hetalt | 93.2274 | 88.0000 | 99.1150 | 87.3884 | 110 | 15 | 112 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.8651 | 96.6463 | 99.1150 | 36.8715 | 317 | 11 | 336 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 98.7364 | 98.3607 | 99.1150 | 86.3291 | 780 | 13 | 784 | 7 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e1 | het | 82.5046 | 70.6625 | 99.1150 | 92.6095 | 224 | 93 | 224 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.9998 | 98.8848 | 99.1150 | 44.5935 | 2128 | 24 | 2128 | 19 | 14 | 73.6842 | |
| gduggal-bwafb | INDEL | D1_5 | map_l150_m1_e0 | homalt | 98.6784 | 98.2456 | 99.1150 | 89.6092 | 224 | 4 | 224 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9542 | 98.7939 | 99.1150 | 59.1505 | 901 | 11 | 896 | 8 | 8 | 100.0000 | |
| egarrison-hhga | INDEL | D1_5 | HG002compoundhet | hetalt | 77.6385 | 63.8117 | 99.1149 | 65.8609 | 6519 | 3697 | 6159 | 55 | 48 | 87.2727 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | homalt | 80.6830 | 68.0315 | 99.1149 | 73.2795 | 7959 | 3740 | 7839 | 70 | 70 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | map_l125_m1_e0 | * | 99.1952 | 99.2757 | 99.1147 | 70.0226 | 15900 | 116 | 15898 | 142 | 4 | 2.8169 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5174 | 99.9237 | 99.1144 | 60.1090 | 3928 | 3 | 3917 | 35 | 2 | 5.7143 | |
| ckim-dragen | INDEL | * | * | * | 99.1359 | 99.1574 | 99.1143 | 60.3466 | 341639 | 2903 | 341303 | 3050 | 2010 | 65.9016 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.2708 | 99.4280 | 99.1141 | 69.5332 | 19467 | 112 | 19467 | 174 | 16 | 9.1954 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.2708 | 99.4280 | 99.1141 | 69.5332 | 19467 | 112 | 19467 | 174 | 16 | 9.1954 | |
| jlack-gatk | INDEL | I1_5 | * | * | 99.0273 | 98.9407 | 99.1140 | 59.6345 | 149068 | 1596 | 149119 | 1333 | 677 | 50.7877 | |