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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57751-57800 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7565 | 99.6672 | 99.8461 | 33.6736 | 3893 | 13 | 3892 | 6 | 2 | 33.3333 | |
| jmaeng-gatk | SNP | tv | * | hetalt | 98.6127 | 97.9334 | 99.3015 | 55.2138 | 853 | 18 | 853 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1051 | 98.6148 | 99.6003 | 69.7196 | 1495 | 21 | 1495 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e1 | homalt | 95.1579 | 91.8699 | 98.6900 | 87.1240 | 452 | 40 | 452 | 6 | 4 | 66.6667 | |
| jpowers-varprowl | INDEL | * | map_l250_m0_e0 | * | 91.6129 | 91.0256 | 92.2078 | 98.2130 | 71 | 7 | 71 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | * | map_l250_m0_e0 | het | 90.7407 | 92.4528 | 89.0909 | 98.3513 | 49 | 4 | 49 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 90.2235 | 84.1085 | 97.2973 | 60.5684 | 217 | 41 | 216 | 6 | 4 | 66.6667 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 90.3431 | 83.7398 | 98.0769 | 74.6548 | 309 | 60 | 306 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e0 | homalt | 95.8650 | 92.9624 | 98.9547 | 77.9992 | 568 | 43 | 568 | 6 | 2 | 33.3333 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m2_e1 | homalt | 95.8403 | 92.9032 | 98.9691 | 78.1695 | 576 | 44 | 576 | 6 | 2 | 33.3333 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m1_e0 | het | 92.6606 | 90.9910 | 94.3925 | 96.3680 | 101 | 10 | 101 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e0 | het | 93.2773 | 91.7355 | 94.8718 | 96.5022 | 111 | 10 | 111 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l250_m2_e1 | het | 93.3333 | 91.8033 | 94.9153 | 96.5547 | 112 | 10 | 112 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 61.7234 | 51.1628 | 77.7778 | 78.2258 | 22 | 21 | 21 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9097 | 99.9179 | 99.9015 | 54.3245 | 6083 | 5 | 6083 | 6 | 4 | 66.6667 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.6996 | 93.7063 | 95.7143 | 92.5013 | 134 | 9 | 134 | 6 | 3 | 50.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.1456 | 96.0784 | 94.2308 | 92.3134 | 98 | 4 | 98 | 6 | 3 | 50.0000 | |
| jli-custom | SNP | * | map_l250_m1_e0 | homalt | 99.3477 | 98.9444 | 99.7544 | 84.2418 | 2437 | 26 | 2437 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e0 | homalt | 99.3833 | 98.9948 | 99.7749 | 85.5202 | 2659 | 27 | 2659 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e1 | homalt | 99.3906 | 99.0066 | 99.7775 | 85.5799 | 2691 | 27 | 2691 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7298 | 99.6506 | 99.8091 | 71.0989 | 3137 | 11 | 3137 | 6 | 4 | 66.6667 | |
| jli-custom | SNP | ti | map_l100_m0_e0 | homalt | 99.6776 | 99.4340 | 99.9224 | 57.9039 | 7730 | 44 | 7730 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | map_l150_m1_e0 | homalt | 99.7128 | 99.5087 | 99.9178 | 67.3088 | 7291 | 36 | 7291 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | map_l150_m2_e0 | homalt | 99.7105 | 99.5011 | 99.9209 | 69.8737 | 7578 | 38 | 7578 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | ti | map_l150_m2_e1 | homalt | 99.7134 | 99.5060 | 99.9217 | 69.9097 | 7655 | 38 | 7655 | 6 | 6 | 100.0000 | |
| jli-custom | SNP | tv | HG002compoundhet | homalt | 99.8081 | 99.7934 | 99.8228 | 43.2831 | 3381 | 7 | 3380 | 6 | 4 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8860 | 99.8316 | 99.9405 | 61.6312 | 10080 | 17 | 10080 | 6 | 4 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7789 | 99.6438 | 99.9143 | 60.0480 | 6994 | 25 | 6992 | 6 | 3 | 50.0000 | |
| jli-custom | SNP | tv | map_l100_m1_e0 | homalt | 99.7840 | 99.6351 | 99.9335 | 58.3614 | 9010 | 33 | 9010 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | homalt | 99.7826 | 99.6310 | 99.9347 | 60.9754 | 9180 | 34 | 9180 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l100_m2_e1 | homalt | 99.7847 | 99.6345 | 99.9353 | 60.9647 | 9268 | 34 | 9268 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m1_e0 | homalt | 99.7265 | 99.5563 | 99.8973 | 63.1639 | 5834 | 26 | 5834 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m2_e0 | homalt | 99.7336 | 99.5679 | 99.8999 | 65.8835 | 5991 | 26 | 5991 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m2_e1 | homalt | 99.7361 | 99.5719 | 99.9009 | 65.9064 | 6048 | 26 | 6048 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | segdup | homalt | 99.8611 | 99.9074 | 99.8149 | 89.3818 | 3235 | 3 | 3235 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.9531 | 94.2953 | 99.7651 | 38.9579 | 2529 | 153 | 2548 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 98.6254 | 99.3080 | 97.9522 | 75.9046 | 287 | 2 | 287 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m0_e0 | * | 79.3651 | 78.1250 | 80.6452 | 93.7120 | 25 | 7 | 25 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m0_e0 | het | 84.4444 | 95.0000 | 76.0000 | 93.9904 | 19 | 1 | 19 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | func_cds | het | 91.6667 | 93.2203 | 90.1639 | 47.4138 | 55 | 4 | 55 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m1_e0 | homalt | 97.6562 | 96.5251 | 98.8142 | 74.0646 | 500 | 18 | 500 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e0 | homalt | 97.5191 | 96.2335 | 98.8395 | 76.2735 | 511 | 20 | 511 | 6 | 5 | 83.3333 | |
| jpowers-varprowl | INDEL | I1_5 | map_l250_m1_e0 | het | 89.0756 | 88.3333 | 89.8305 | 97.1036 | 53 | 7 | 53 | 6 | 3 | 50.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 12.5000 | 8.3333 | 25.0000 | 91.3043 | 2 | 22 | 2 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | map_l125_m1_e0 | het | 61.5385 | 53.3333 | 72.7273 | 92.3077 | 16 | 14 | 16 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | map_l125_m2_e0 | het | 61.5385 | 53.3333 | 72.7273 | 93.3535 | 16 | 14 | 16 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | map_l125_m2_e1 | het | 61.5385 | 53.3333 | 72.7273 | 93.5103 | 16 | 14 | 16 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | map_l150_m2_e1 | * | 53.3333 | 44.4444 | 66.6667 | 94.6429 | 12 | 15 | 12 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | SNP | * | map_l250_m0_e0 | homalt | 97.1660 | 95.3895 | 99.0099 | 94.2749 | 600 | 29 | 600 | 6 | 2 | 33.3333 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 66.6667 | 100.0000 | 50.0000 | 92.6829 | 6 | 0 | 6 | 6 | 2 | 33.3333 | |