PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20901-20950 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4861 | 97.9849 | 98.9924 | 89.4091 | 778 | 16 | 786 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | * | 97.9979 | 98.5800 | 97.4227 | 90.0883 | 1319 | 19 | 1323 | 35 | 7 | 20.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | * | 98.0622 | 98.6506 | 97.4808 | 90.7478 | 1389 | 19 | 1393 | 36 | 7 | 19.4444 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7023 | 95.9815 | 99.4860 | 36.7100 | 1242 | 52 | 1355 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5702 | 98.7805 | 92.5620 | 88.0435 | 162 | 2 | 112 | 9 | 7 | 77.7778 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5782 | 86.5532 | 99.5046 | 32.0000 | 1577 | 245 | 1607 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8910 | 99.9727 | 99.8094 | 51.1312 | 3665 | 1 | 3665 | 7 | 7 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.7615 | 97.6623 | 97.8610 | 79.0945 | 376 | 9 | 366 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0488 | 98.3627 | 99.7446 | 66.6690 | 4686 | 78 | 4686 | 12 | 7 | 58.3333 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6447 | 95.8388 | 99.5199 | 88.8259 | 1451 | 63 | 1451 | 7 | 7 | 100.0000 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | homalt | 98.6256 | 97.6045 | 99.6683 | 85.3151 | 2404 | 59 | 2404 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | homalt | 98.6994 | 97.7189 | 99.6997 | 86.4012 | 2656 | 62 | 2656 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | ti | HG002compoundhet | homalt | 99.8918 | 99.8783 | 99.9053 | 30.4740 | 7385 | 9 | 7385 | 7 | 7 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l125_m0_e0 | homalt | 99.0916 | 98.3745 | 99.8192 | 66.7668 | 4418 | 73 | 4418 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9300 | 96.4838 | 99.4203 | 88.6662 | 1372 | 50 | 1372 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.8939 | 98.1187 | 99.6815 | 82.4367 | 4068 | 78 | 4068 | 13 | 7 | 53.8462 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8731 | 98.0246 | 99.7364 | 69.1784 | 3027 | 61 | 3027 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | het | 89.5033 | 81.3487 | 99.4750 | 78.3064 | 5875 | 1347 | 5874 | 31 | 7 | 22.5806 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | * | 92.5829 | 87.0042 | 98.9261 | 90.0355 | 2303 | 344 | 2303 | 25 | 7 | 28.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | * | 92.3931 | 86.6065 | 99.0083 | 90.6397 | 2496 | 386 | 2496 | 25 | 7 | 28.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e1 | * | 92.4090 | 86.6255 | 99.0200 | 90.7000 | 2526 | 390 | 2526 | 25 | 7 | 28.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | het | 88.1603 | 83.0712 | 93.9138 | 91.7400 | 1109 | 226 | 1111 | 72 | 7 | 9.7222 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e0 | het | 88.2149 | 83.1057 | 93.9935 | 92.2139 | 1156 | 235 | 1158 | 74 | 7 | 9.4595 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e1 | het | 88.1973 | 83.0256 | 94.0562 | 92.2786 | 1169 | 239 | 1171 | 74 | 7 | 9.4595 | |
| asubramanian-gatk | INDEL | * | map_l150_m1_e0 | * | 89.9819 | 85.5007 | 94.9587 | 97.6598 | 1144 | 194 | 1149 | 61 | 7 | 11.4754 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | * | 90.1581 | 85.7955 | 94.9883 | 97.8029 | 1208 | 200 | 1213 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | * | 90.1401 | 85.6845 | 95.0845 | 97.7994 | 1233 | 206 | 1238 | 64 | 7 | 10.9375 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | * | tech_badpromoters | homalt | 76.1124 | 75.7576 | 76.4706 | 47.6923 | 25 | 8 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 49.6562 | 36.7647 | 76.4706 | 96.4620 | 25 | 43 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 64.7059 | 73.3333 | 57.8947 | 97.5734 | 11 | 4 | 11 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 40.0000 | 50.0000 | 33.3333 | 42.3077 | 4 | 4 | 5 | 10 | 7 | 70.0000 | |
| anovak-vg | INDEL | D6_15 | map_l125_m0_e0 | * | 77.7114 | 74.4681 | 81.2500 | 92.1824 | 35 | 12 | 39 | 9 | 7 | 77.7778 | |
| anovak-vg | INDEL | D6_15 | map_l150_m1_e0 | het | 80.3240 | 87.1795 | 74.4681 | 92.3948 | 34 | 5 | 35 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e0 | het | 79.4212 | 82.6087 | 76.4706 | 92.2844 | 38 | 8 | 39 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e1 | het | 79.8362 | 82.9787 | 76.9231 | 92.2619 | 39 | 8 | 40 | 12 | 7 | 58.3333 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 27.4390 | 41.6667 | 20.4545 | 56.4356 | 10 | 14 | 9 | 35 | 7 | 20.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 24.1692 | 17.0213 | 41.6667 | 74.4681 | 8 | 39 | 5 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 53.3333 | 100.0000 | 36.3636 | 63.3333 | 4 | 0 | 4 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 0.0000 | 0.0000 | 41.6667 | 69.2308 | 0 | 2 | 5 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | map_l125_m0_e0 | het | 48.1438 | 39.5833 | 61.4286 | 93.9707 | 76 | 116 | 86 | 54 | 7 | 12.9630 | |
| anovak-vg | INDEL | I1_5 | map_l150_m1_e0 | het | 51.0679 | 42.8094 | 63.2743 | 93.1411 | 128 | 171 | 143 | 83 | 7 | 8.4337 | |
| anovak-vg | INDEL | I1_5 | map_l250_m0_e0 | homalt | 66.9856 | 77.7778 | 58.8235 | 97.3725 | 7 | 2 | 10 | 7 | 7 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | func_cds | homalt | 75.6757 | 93.3333 | 63.6364 | 35.2941 | 14 | 1 | 14 | 8 | 7 | 87.5000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.1476 | 62.9630 | 63.3333 | 96.0159 | 17 | 10 | 19 | 11 | 7 | 63.6364 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.0165 | 87.8049 | 78.7234 | 89.4144 | 36 | 5 | 37 | 10 | 7 | 70.0000 | |
| anovak-vg | SNP | tv | map_l150_m0_e0 | homalt | 82.5658 | 70.7831 | 99.0546 | 79.9368 | 940 | 388 | 943 | 9 | 7 | 77.7778 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.8006 | 97.5318 | 98.0707 | 78.8291 | 1225 | 31 | 1220 | 24 | 7 | 29.1667 | |
| astatham-gatk | INDEL | * | map_l150_m1_e0 | * | 96.6569 | 96.0389 | 97.2830 | 90.5512 | 1285 | 53 | 1289 | 36 | 7 | 19.4444 | |