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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69351-69400 / 86044 show all | |||||||||||||||
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.7234 | 98.5247 | 93.0769 | 67.4612 | 6144 | 92 | 5324 | 396 | 73 | 18.4343 | |
| eyeh-varpipe | SNP | * | map_l100_m0_e0 | het | 97.2093 | 99.5661 | 94.9614 | 74.6186 | 21113 | 92 | 20524 | 1089 | 21 | 1.9284 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8642 | 99.2036 | 98.5271 | 69.1157 | 11460 | 92 | 11104 | 166 | 51 | 30.7229 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8642 | 99.2036 | 98.5271 | 69.1157 | 11460 | 92 | 11104 | 166 | 51 | 30.7229 | |
| gduggal-bwafb | INDEL | * | map_l125_m2_e0 | * | 96.9636 | 95.8106 | 98.1447 | 86.9397 | 2104 | 92 | 2116 | 40 | 8 | 20.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2372 | 98.7305 | 99.7490 | 37.0877 | 7155 | 92 | 7154 | 18 | 18 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3467 | 99.2253 | 99.4684 | 49.9176 | 11783 | 92 | 11787 | 63 | 54 | 85.7143 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 91.0987 | 84.2196 | 99.2016 | 58.5608 | 491 | 92 | 497 | 4 | 4 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l100_m2_e0 | * | 97.9477 | 97.5088 | 98.3906 | 98.2302 | 3601 | 92 | 3607 | 59 | 27 | 45.7627 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2233 | 97.8292 | 98.6207 | 80.5008 | 4146 | 92 | 4147 | 58 | 16 | 27.5862 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e0 | homalt | 69.8718 | 54.2289 | 98.1982 | 86.5942 | 109 | 92 | 109 | 2 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m2_e1 | homalt | 70.4403 | 54.9020 | 98.2456 | 86.5882 | 112 | 92 | 112 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.2777 | 94.8052 | 99.8826 | 40.8681 | 1679 | 92 | 1701 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.0034 | 74.5856 | 75.4258 | 72.2485 | 270 | 92 | 310 | 101 | 98 | 97.0297 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.1362 | 81.1475 | 85.2248 | 77.0629 | 396 | 92 | 398 | 69 | 22 | 31.8841 | |
| ckim-isaac | SNP | * | func_cds | homalt | 99.3365 | 98.6818 | 100.0000 | 18.1191 | 6887 | 92 | 6887 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7214 | 99.2652 | 98.1834 | 66.0056 | 12429 | 92 | 12269 | 227 | 213 | 93.8326 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.2861 | 96.5348 | 98.0492 | 68.8578 | 2563 | 92 | 2513 | 50 | 38 | 76.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.5445 | 99.1568 | 99.9353 | 61.6132 | 10819 | 92 | 10815 | 7 | 5 | 71.4286 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | homalt | 99.7908 | 99.6657 | 99.9162 | 60.2352 | 27431 | 92 | 27431 | 23 | 18 | 78.2609 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e0 | * | 98.4835 | 98.8332 | 98.1363 | 89.4731 | 7793 | 92 | 7793 | 148 | 32 | 21.6216 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6546 | 90.5641 | 99.1321 | 40.6411 | 883 | 92 | 1028 | 9 | 9 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.5299 | 91.9369 | 97.2735 | 78.9642 | 1049 | 92 | 1213 | 34 | 29 | 85.2941 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | hetalt | 0.0000 | 25.8065 | 0.0000 | 0.0000 | 32 | 92 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | * | map_l100_m2_e0 | hetalt | 0.0000 | 26.4000 | 0.0000 | 0.0000 | 33 | 92 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 17.8914 | 14.8148 | 22.5806 | 56.6434 | 16 | 92 | 14 | 48 | 8 | 16.6667 | |
| ciseli-custom | SNP | ti | HG002complexvar | hetalt | 68.4524 | 55.5556 | 89.1473 | 41.3636 | 115 | 92 | 115 | 14 | 9 | 64.2857 | |
| ciseli-custom | SNP | ti | map_l250_m0_e0 | homalt | 80.1652 | 78.8991 | 81.4727 | 91.7012 | 344 | 92 | 343 | 78 | 53 | 67.9487 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.6558 | 90.5641 | 99.1346 | 40.5714 | 883 | 92 | 1031 | 9 | 9 | 100.0000 | |
| ckim-dragen | SNP | tv | map_l125_m0_e0 | * | 97.9625 | 98.6126 | 97.3210 | 77.9914 | 6539 | 92 | 6539 | 180 | 17 | 9.4444 | |
| ciseli-custom | INDEL | D6_15 | map_siren | hetalt | 0.0000 | 7.0707 | 0.0000 | 0.0000 | 7 | 92 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 87.8840 | 90.4959 | 85.4187 | 61.0813 | 876 | 92 | 867 | 148 | 71 | 47.9730 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 96.5697 | 0.0000 | 0.0000 | 2590 | 92 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 36.6255 | 74.3733 | 24.2948 | 50.0227 | 267 | 92 | 267 | 832 | 775 | 93.1490 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | homalt | 99.4914 | 99.2221 | 99.7621 | 68.4589 | 11735 | 92 | 11740 | 28 | 25 | 89.2857 | |
| ciseli-custom | INDEL | D6_15 | HG002complexvar | homalt | 60.1083 | 92.0445 | 44.6250 | 54.8278 | 1076 | 93 | 1071 | 1329 | 1061 | 79.8345 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 43.2336 | 78.7185 | 29.8002 | 45.0072 | 344 | 93 | 343 | 808 | 773 | 95.6683 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 82.5807 | 86.7710 | 78.7765 | 37.6168 | 610 | 93 | 631 | 170 | 95 | 55.8824 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 4.1237 | 0.0000 | 0.0000 | 4 | 93 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | map_l100_m1_e0 | * | 28.7671 | 18.4211 | 65.6250 | 88.7719 | 21 | 93 | 21 | 11 | 10 | 90.9091 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 92.3957 | 0.0000 | 0.0000 | 1130 | 93 | 0 | 0 | 0 | ||
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6230 | 96.5771 | 98.6919 | 84.5324 | 2624 | 93 | 2716 | 36 | 23 | 63.8889 | |
| eyeh-varpipe | INDEL | I6_15 | map_siren | * | 77.9593 | 69.5082 | 88.7500 | 73.3555 | 212 | 93 | 284 | 36 | 33 | 91.6667 | |
| gduggal-bwavard | SNP | tv | map_l150_m2_e1 | homalt | 98.7655 | 97.7504 | 99.8019 | 73.3170 | 4041 | 93 | 4031 | 8 | 6 | 75.0000 | |
| gduggal-bwavard | INDEL | * | segdup | homalt | 94.7011 | 90.3125 | 99.5381 | 91.1777 | 867 | 93 | 862 | 4 | 4 | 100.0000 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | * | 92.8526 | 95.1436 | 90.6694 | 86.8647 | 1822 | 93 | 1788 | 184 | 50 | 27.1739 | |
| gduggal-bwavard | INDEL | D6_15 | map_l100_m2_e1 | * | 67.9623 | 66.1818 | 69.8413 | 89.4073 | 182 | 93 | 176 | 76 | 63 | 82.8947 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8251 | 98.5087 | 93.2839 | 75.9171 | 6143 | 93 | 6167 | 444 | 105 | 23.6486 | |