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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51301-51350 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.9356 | 99.8106 | 96.1297 | 54.5329 | 4744 | 9 | 4744 | 191 | 190 | 99.4764 | |
| 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 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 44.0002 | 28.5292 | 96.1301 | 45.3174 | 2029 | 5083 | 2335 | 94 | 92 | 97.8723 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.5247 | 98.9580 | 96.1323 | 63.1557 | 3419 | 36 | 3430 | 138 | 1 | 0.7246 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 72.1094 | 57.6923 | 96.1326 | 57.6112 | 165 | 121 | 174 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | het | 73.7629 | 59.8383 | 96.1336 | 96.8561 | 3108 | 2086 | 3108 | 125 | 9 | 7.2000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.7184 | 99.3562 | 96.1338 | 51.2081 | 6636 | 43 | 6639 | 267 | 254 | 95.1311 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.2004 | 96.2658 | 96.1350 | 51.4737 | 1521 | 59 | 1567 | 63 | 25 | 39.6825 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 97.0684 | 98.0198 | 96.1353 | 92.6648 | 198 | 4 | 199 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.8256 | 97.5251 | 96.1361 | 70.1065 | 17378 | 441 | 18561 | 746 | 415 | 55.6300 | |
| cchapple-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.6951 | 91.3730 | 96.1384 | 58.0455 | 9204 | 869 | 12448 | 500 | 431 | 86.2000 | |
| ckim-dragen | INDEL | D16_PLUS | * | het | 97.5880 | 99.0820 | 96.1385 | 80.1270 | 3130 | 29 | 2888 | 116 | 38 | 32.7586 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m1_e0 | * | 96.3250 | 96.5116 | 96.1390 | 87.0110 | 249 | 9 | 249 | 10 | 2 | 20.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 52.2084 | 35.8340 | 96.1392 | 47.0737 | 1710 | 3062 | 2017 | 81 | 81 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | het | 73.9537 | 60.0874 | 96.1398 | 96.8694 | 3163 | 2101 | 3163 | 127 | 9 | 7.0866 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002complexvar | het | 93.4882 | 90.9774 | 96.1415 | 59.6889 | 605 | 60 | 598 | 24 | 22 | 91.6667 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.6849 | 87.6214 | 96.1436 | 66.2478 | 722 | 102 | 723 | 29 | 8 | 27.5862 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6437 | 99.1903 | 96.1445 | 69.5777 | 4410 | 36 | 4364 | 175 | 167 | 95.4286 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.2920 | 98.4666 | 96.1450 | 64.1784 | 12329 | 192 | 12171 | 488 | 413 | 84.6311 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 77.7807 | 65.3066 | 96.1451 | 67.6686 | 2545 | 1352 | 2544 | 102 | 31 | 30.3922 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6377 | 99.1766 | 96.1458 | 58.9707 | 1325 | 11 | 1372 | 55 | 1 | 1.8182 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | het | 95.6747 | 95.2060 | 96.1480 | 92.4743 | 1271 | 64 | 1273 | 51 | 5 | 9.8039 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e1 | het | 96.3352 | 96.5223 | 96.1488 | 80.1525 | 10186 | 367 | 10186 | 408 | 95 | 23.2843 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3154 | 98.5106 | 96.1490 | 77.8952 | 2381 | 36 | 2272 | 91 | 31 | 34.0659 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 81.3386 | 70.4818 | 96.1491 | 65.8212 | 26714 | 11188 | 26716 | 1070 | 602 | 56.2617 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2698 | 98.4163 | 96.1497 | 78.7844 | 3853 | 62 | 3571 | 143 | 49 | 34.2657 | |
| eyeh-varpipe | INDEL | I1_5 | map_l250_m0_e0 | homalt | 98.0392 | 100.0000 | 96.1538 | 96.6013 | 9 | 0 | 25 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.0392 | 100.0000 | 96.1538 | 79.7665 | 1 | 0 | 50 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | hetalt | 98.0392 | 100.0000 | 96.1538 | 81.9444 | 3 | 0 | 25 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.8681 | 82.6087 | 96.1538 | 64.8649 | 76 | 16 | 75 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m0_e0 | * | 84.7458 | 75.7576 | 96.1538 | 87.0000 | 25 | 8 | 25 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 79.3651 | 67.5676 | 96.1538 | 69.7674 | 25 | 12 | 25 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 80.6452 | 69.4444 | 96.1538 | 77.9661 | 25 | 11 | 25 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 71.4286 | 56.8182 | 96.1538 | 82.0690 | 25 | 19 | 25 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C16_PLUS | HG002compoundhet | hetalt | 0.0000 | 0.0000 | 96.1538 | 88.0184 | 0 | 0 | 25 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 96.6184 | 97.0874 | 96.1538 | 91.7916 | 100 | 3 | 100 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 96.1538 | 97.0115 | 0 | 0 | 25 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 96.1538 | 94.3437 | 0 | 0 | 75 | 3 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 96.1538 | 94.3437 | 0 | 0 | 75 | 3 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 96.1538 | 97.2281 | 0 | 0 | 25 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.3396 | 92.5926 | 96.1538 | 72.7273 | 75 | 6 | 75 | 3 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | tv | map_l250_m1_e0 | * | 67.4516 | 51.9456 | 96.1538 | 96.4328 | 1375 | 1272 | 1375 | 55 | 2 | 3.6364 | |
| jpowers-varprowl | INDEL | * | map_l250_m1_e0 | homalt | 93.8967 | 91.7431 | 96.1538 | 94.0673 | 100 | 9 | 100 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | * | map_l250_m0_e0 | homalt | 98.0392 | 100.0000 | 96.1538 | 97.3604 | 25 | 0 | 25 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | map_l100_m0_e0 | * | 96.6184 | 97.0874 | 96.1538 | 88.7931 | 100 | 3 | 100 | 4 | 1 | 25.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | segdup | homalt | 98.0392 | 100.0000 | 96.1538 | 91.9753 | 50 | 0 | 50 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l125_m1_e0 | het | 89.2857 | 83.3333 | 96.1538 | 91.8239 | 25 | 5 | 25 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l125_m2_e0 | het | 89.2857 | 83.3333 | 96.1538 | 92.5714 | 25 | 5 | 25 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l125_m2_e1 | het | 89.2857 | 83.3333 | 96.1538 | 92.6966 | 25 | 5 | 25 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.3525 | 92.6174 | 96.1538 | 75.7009 | 138 | 11 | 125 | 5 | 3 | 60.0000 | |