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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85501-85550 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | hetalt | 0.0000 | 0.5189 | 0.0000 | 0.0000 | 58 | 11119 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I1_5 | * | hetalt | 0.0000 | 0.6699 | 0.0000 | 0.0000 | 75 | 11120 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | HG002complexvar | het | 97.2372 | 96.4650 | 98.0220 | 17.7484 | 303639 | 11127 | 299610 | 6046 | 4694 | 77.6381 | |
| gduggal-bwavard | INDEL | I1_5 | * | hetalt | 0.0000 | 0.5181 | 0.0000 | 0.0000 | 58 | 11137 | 0 | 0 | 0 | ||
| ckim-isaac | SNP | ti | map_siren | homalt | 82.7288 | 70.5560 | 99.9776 | 44.7961 | 26752 | 11164 | 26753 | 6 | 6 | 100.0000 | |
| astatham-gatk | SNP | ti | map_siren | * | 94.0656 | 88.8705 | 99.9059 | 56.9785 | 89186 | 11169 | 89171 | 84 | 46 | 54.7619 | |
| ciseli-custom | INDEL | I1_5 | HG002compoundhet | * | 12.1122 | 9.5913 | 16.4310 | 70.5188 | 1185 | 11170 | 1255 | 6383 | 5985 | 93.7647 | |
| ckim-vqsr | SNP | ti | * | het | 99.5238 | 99.1280 | 99.9229 | 24.8520 | 1270713 | 11178 | 1270665 | 981 | 62 | 6.3201 | |
| 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 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 40.1009 | 36.3420 | 44.7271 | 57.2051 | 6422 | 11249 | 6417 | 7930 | 7870 | 99.2434 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 40.1009 | 36.3420 | 44.7271 | 57.2051 | 6422 | 11249 | 6417 | 7930 | 7870 | 99.2434 | |
| gduggal-bwavard | INDEL | I1_5 | HG002compoundhet | * | 10.9209 | 8.5626 | 15.0721 | 67.7671 | 1058 | 11298 | 983 | 5539 | 5452 | 98.4293 | |
| ghariani-varprowl | INDEL | I1_5 | HG002compoundhet | * | 10.6218 | 8.4898 | 14.1837 | 70.9227 | 1049 | 11307 | 1033 | 6250 | 6046 | 96.7360 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 48.1230 | 32.2658 | 94.6289 | 66.5252 | 5390 | 11315 | 7611 | 432 | 407 | 94.2130 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 48.1230 | 32.2658 | 94.6289 | 66.5252 | 5390 | 11315 | 7611 | 432 | 407 | 94.2130 | |
| jpowers-varprowl | INDEL | I1_5 | HG002compoundhet | * | 10.3239 | 8.1742 | 14.0078 | 68.9924 | 1010 | 11346 | 1001 | 6145 | 6014 | 97.8682 | |
| asubramanian-gatk | SNP | tv | map_l125_m1_e0 | * | 45.0440 | 29.0834 | 99.8285 | 92.0394 | 4658 | 11358 | 4657 | 8 | 1 | 12.5000 | |
| mlin-fermikit | SNP | ti | map_l150_m1_e0 | * | 56.8574 | 42.3346 | 86.5470 | 60.8408 | 8345 | 11367 | 8344 | 1297 | 1150 | 88.6662 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 62.1592 | 62.6870 | 61.6403 | 53.4558 | 19107 | 11373 | 30086 | 18723 | 13632 | 72.8088 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 62.1592 | 62.6870 | 61.6403 | 53.4558 | 19107 | 11373 | 30086 | 18723 | 13632 | 72.8088 | |
| gduggal-snapplat | SNP | tv | * | het | 98.3145 | 98.0664 | 98.5638 | 36.3598 | 580263 | 11441 | 580658 | 8461 | 866 | 10.2352 | |
| ckim-vqsr | SNP | ti | HG002complexvar | * | 98.8535 | 97.7474 | 99.9849 | 18.1351 | 496983 | 11453 | 496925 | 75 | 38 | 50.6667 | |
| asubramanian-gatk | SNP | tv | map_siren | het | 74.9187 | 59.9671 | 99.8022 | 78.0195 | 17156 | 11453 | 17153 | 34 | 10 | 29.4118 | |
| ckim-isaac | SNP | * | map_l100_m1_e0 | homalt | 73.0435 | 57.5492 | 99.9550 | 54.3192 | 15540 | 11463 | 15540 | 7 | 7 | 100.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 78.3192 | 73.5341 | 83.7704 | 54.2583 | 31866 | 11469 | 36291 | 7031 | 3645 | 51.8418 | |
| jpowers-varprowl | INDEL | D6_15 | * | * | 59.8326 | 55.9329 | 64.3169 | 53.9833 | 14594 | 11498 | 14589 | 8094 | 8006 | 98.9128 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e0 | * | 46.3923 | 30.2201 | 99.7997 | 92.3039 | 4983 | 11506 | 4982 | 10 | 2 | 20.0000 | |
| ckim-vqsr | SNP | * | map_l100_m1_e0 | het | 85.1033 | 74.6313 | 98.9938 | 84.0158 | 33852 | 11507 | 33844 | 344 | 11 | 3.1977 | |
| ckim-isaac | SNP | * | map_l100_m2_e0 | homalt | 73.4369 | 58.0387 | 99.9562 | 58.2196 | 15974 | 11549 | 15974 | 7 | 7 | 100.0000 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e0 | * | 58.1126 | 43.6427 | 86.9367 | 65.5641 | 8952 | 11560 | 8951 | 1345 | 1186 | 88.1784 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 48.8268 | 34.5142 | 83.4201 | 65.6853 | 6099 | 11572 | 5766 | 1146 | 527 | 45.9860 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 48.8268 | 34.5142 | 83.4201 | 65.6853 | 6099 | 11572 | 5766 | 1146 | 527 | 45.9860 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e1 | * | 46.6345 | 30.4256 | 99.8030 | 92.2720 | 5068 | 11589 | 5067 | 10 | 2 | 20.0000 | |
| ckim-vqsr | SNP | * | map_l100_m2_e0 | het | 85.3365 | 74.9930 | 98.9898 | 84.8848 | 34796 | 11603 | 34788 | 355 | 13 | 3.6620 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 63.2865 | 63.0325 | 63.5426 | 64.6177 | 19796 | 11610 | 19777 | 11347 | 6716 | 59.1875 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 63.2865 | 63.0325 | 63.5426 | 64.6177 | 19796 | 11610 | 19777 | 11347 | 6716 | 59.1875 | |
| gduggal-bwaplat | SNP | ti | map_l125_m1_e0 | * | 75.1104 | 60.3648 | 99.3885 | 86.1772 | 17708 | 11627 | 17715 | 109 | 33 | 30.2752 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e1 | * | 58.3031 | 43.8450 | 86.9877 | 65.8089 | 9086 | 11637 | 9085 | 1359 | 1198 | 88.1531 | |
| ckim-isaac | SNP | * | map_l100_m2_e1 | homalt | 73.4703 | 58.0803 | 99.9567 | 58.1884 | 16144 | 11652 | 16144 | 7 | 7 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | het | 85.4225 | 75.1205 | 98.9994 | 84.8723 | 35230 | 11668 | 35222 | 356 | 13 | 3.6517 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e0 | * | 75.8315 | 61.2995 | 99.3947 | 87.0105 | 18548 | 11710 | 18555 | 113 | 34 | 30.0885 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | * | 60.1229 | 46.0705 | 86.5103 | 52.4193 | 10030 | 11741 | 10030 | 1564 | 1408 | 90.0256 | |
| qzeng-custom | SNP | * | HG002complexvar | * | 99.1204 | 98.4430 | 99.8072 | 19.9398 | 742639 | 11746 | 723843 | 1398 | 631 | 45.1359 | |
| gduggal-bwaplat | SNP | ti | map_l125_m2_e1 | * | 76.0359 | 61.5656 | 99.3981 | 86.9873 | 18820 | 11749 | 18827 | 114 | 34 | 29.8246 | |
| mlin-fermikit | SNP | * | * | homalt | 98.9666 | 99.0041 | 98.9290 | 17.0911 | 1168409 | 11753 | 1168425 | 12649 | 12153 | 96.0787 | |
| ckim-isaac | SNP | ti | map_l125_m1_e0 | * | 74.8103 | 59.8330 | 99.7896 | 70.2803 | 17552 | 11783 | 17552 | 37 | 7 | 18.9189 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | * | 84.2085 | 74.0000 | 97.6843 | 84.3364 | 33542 | 11785 | 33536 | 795 | 54 | 6.7925 | |
| gduggal-bwaplat | INDEL | * | * | homalt | 94.8233 | 90.5786 | 99.4855 | 59.5744 | 113379 | 11793 | 113311 | 586 | 499 | 85.1536 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | * | 84.2159 | 73.9471 | 97.7967 | 84.1626 | 33518 | 11809 | 33512 | 755 | 58 | 7.6821 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | * | 84.6294 | 74.6420 | 97.7024 | 85.2765 | 34875 | 11848 | 34869 | 820 | 54 | 6.5854 | |