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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62501-62550 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2753 | 99.1071 | 99.4439 | 65.2571 | 3219 | 29 | 3219 | 18 | 4 | 22.2222 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0857 | 99.0613 | 99.1102 | 68.1518 | 2005 | 19 | 2005 | 18 | 4 | 22.2222 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7919 | 99.6278 | 99.9566 | 63.4476 | 11509 | 43 | 11509 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.5149 | 99.7222 | 99.3084 | 87.5709 | 718 | 2 | 718 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7919 | 99.6278 | 99.9566 | 63.4476 | 11509 | 43 | 11509 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | ti | segdup | homalt | 99.9000 | 99.8534 | 99.9467 | 87.4231 | 7494 | 11 | 7494 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | map_l100_m0_e0 | homalt | 99.6221 | 99.4020 | 99.8433 | 61.4866 | 3823 | 23 | 3823 | 6 | 4 | 66.6667 | |
| bgallagher-sentieon | SNP | tv | map_l125_m0_e0 | homalt | 99.5036 | 99.2796 | 99.7286 | 68.6827 | 2205 | 16 | 2205 | 6 | 4 | 66.6667 | |
| bgallagher-sentieon | SNP | tv | map_l250_m1_e0 | homalt | 99.2393 | 99.0654 | 99.4138 | 85.1935 | 848 | 8 | 848 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e0 | homalt | 99.2513 | 99.0395 | 99.4641 | 86.2166 | 928 | 9 | 928 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e1 | homalt | 99.2585 | 99.0486 | 99.4692 | 86.2982 | 937 | 9 | 937 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8767 | 99.8193 | 99.9342 | 54.4187 | 6077 | 11 | 6077 | 4 | 4 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.2387 | 96.8364 | 99.6823 | 87.5285 | 1255 | 41 | 1255 | 4 | 4 | 100.0000 | |
| 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 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0127 | 98.2067 | 99.8321 | 79.0112 | 4162 | 76 | 4162 | 7 | 4 | 57.1429 | |
| astatham-gatk | SNP | ti | segdup | homalt | 99.8666 | 99.7868 | 99.9466 | 87.4281 | 7489 | 16 | 7489 | 4 | 4 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4474 | 98.9552 | 99.9444 | 60.4265 | 10797 | 114 | 10794 | 6 | 4 | 66.6667 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.2548 | 98.6999 | 99.8159 | 61.6440 | 3796 | 50 | 3796 | 7 | 4 | 57.1429 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | homalt | 98.9564 | 98.1990 | 99.7257 | 68.9479 | 2181 | 40 | 2181 | 6 | 4 | 66.6667 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5866 | 97.7804 | 99.4062 | 85.3845 | 837 | 19 | 837 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | homalt | 98.5460 | 97.6521 | 99.4565 | 86.4046 | 915 | 22 | 915 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e1 | homalt | 98.5600 | 97.6744 | 99.4618 | 86.4833 | 924 | 22 | 924 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.8256 | 96.4486 | 99.2424 | 73.9001 | 516 | 19 | 524 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7828 | 98.3598 | 99.2095 | 53.1018 | 3598 | 60 | 3765 | 30 | 4 | 13.3333 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 94.1091 | 95.0450 | 93.1915 | 72.5788 | 211 | 11 | 219 | 16 | 4 | 25.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.8750 | 96.8750 | 96.8750 | 86.3636 | 372 | 12 | 372 | 12 | 4 | 33.3333 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.5777 | 97.5610 | 95.6140 | 88.7352 | 160 | 4 | 109 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | * | map_l250_m0_e0 | homalt | 97.9920 | 96.9793 | 99.0260 | 91.4528 | 610 | 19 | 610 | 6 | 5 | 83.3333 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7032 | 97.7767 | 99.6475 | 68.5461 | 1979 | 45 | 1979 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5168 | 99.0808 | 99.9567 | 54.7993 | 27702 | 257 | 27701 | 12 | 5 | 41.6667 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.2670 | 98.6631 | 99.8783 | 77.1278 | 6568 | 89 | 6568 | 8 | 5 | 62.5000 | |
| astatham-gatk | SNP | tv | HG002compoundhet | homalt | 99.8376 | 99.8524 | 99.8227 | 42.7314 | 3383 | 5 | 3378 | 6 | 5 | 83.3333 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.4326 | 95.5919 | 99.3455 | 89.4983 | 759 | 35 | 759 | 5 | 5 | 100.0000 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | het | 90.1921 | 82.6403 | 99.2629 | 82.5538 | 3637 | 764 | 3636 | 27 | 5 | 18.5185 | |
| astatham-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.2995 | 98.7836 | 99.8207 | 68.8894 | 3898 | 48 | 3898 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.3231 | 98.8244 | 99.8268 | 71.2518 | 4035 | 48 | 4035 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l150_m2_e1 | homalt | 99.3315 | 98.8389 | 99.8290 | 71.2267 | 4086 | 48 | 4086 | 7 | 5 | 71.4286 | |
| astatham-gatk | SNP | tv | map_l250_m0_e0 | * | 93.9497 | 90.3268 | 97.8754 | 93.7472 | 691 | 74 | 691 | 15 | 5 | 33.3333 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5454 | 98.2333 | 98.8594 | 76.8466 | 2947 | 53 | 2947 | 34 | 5 | 14.7059 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2731 | 99.5818 | 98.9663 | 47.1998 | 2143 | 9 | 2202 | 23 | 5 | 21.7391 | |
| asubramanian-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 97.7470 | 97.5779 | 97.9167 | 76.2963 | 282 | 7 | 282 | 6 | 5 | 83.3333 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.5000 | 98.7469 | 98.2544 | 65.8723 | 394 | 5 | 394 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.4555 | 96.9512 | 97.9651 | 38.5714 | 318 | 10 | 337 | 7 | 5 | 71.4286 | |
| anovak-vg | INDEL | I16_PLUS | segdup | * | 48.3031 | 38.2979 | 65.3846 | 88.6463 | 18 | 29 | 17 | 9 | 5 | 55.5556 | |
| anovak-vg | INDEL | I16_PLUS | segdup | homalt | 60.0000 | 63.1579 | 57.1429 | 87.7907 | 12 | 7 | 12 | 9 | 5 | 55.5556 | |
| anovak-vg | INDEL | I6_15 | map_l100_m0_e0 | homalt | 72.7273 | 75.0000 | 70.5882 | 81.1111 | 9 | 3 | 12 | 5 | 5 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | het | 45.4208 | 35.5932 | 62.7451 | 82.9431 | 21 | 38 | 32 | 19 | 5 | 26.3158 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e0 | het | 44.6377 | 34.4262 | 63.4615 | 83.5962 | 21 | 40 | 33 | 19 | 5 | 26.3158 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e1 | het | 44.3378 | 34.4262 | 62.2642 | 83.5913 | 21 | 40 | 33 | 20 | 5 | 25.0000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 77.5000 | 75.6098 | 79.4872 | 90.6475 | 31 | 10 | 31 | 8 | 5 | 62.5000 | |