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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4451-4500 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | map_l150_m0_e0 | het | 73.7997 | 61.6049 | 92.0141 | 94.1071 | 3140 | 1957 | 3134 | 272 | 231 | 84.9265 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | het | 85.6436 | 76.9070 | 96.6195 | 86.8249 | 8116 | 2437 | 8117 | 284 | 231 | 81.3380 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.2110 | 93.8346 | 64.1606 | 62.6038 | 624 | 41 | 1502 | 839 | 231 | 27.5328 | |
| ckim-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.8739 | 99.6960 | 58.6762 | 88.6290 | 328 | 1 | 328 | 231 | 231 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 73.6043 | 64.1917 | 86.2515 | 56.0661 | 1366 | 762 | 1468 | 234 | 231 | 98.7179 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.8739 | 99.6960 | 58.6762 | 88.9153 | 328 | 1 | 328 | 231 | 231 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | * | het | 99.1970 | 99.4952 | 98.9006 | 61.6913 | 78642 | 399 | 78625 | 874 | 231 | 26.4302 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 88.2045 | 85.6313 | 90.9371 | 50.7128 | 2360 | 396 | 2358 | 235 | 230 | 97.8723 | |
| ndellapenna-hhga | INDEL | I6_15 | * | homalt | 96.8456 | 97.9163 | 95.7981 | 48.3646 | 6109 | 130 | 6110 | 268 | 230 | 85.8209 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | * | 47.0199 | 32.5617 | 84.5718 | 76.5901 | 1491 | 3088 | 1491 | 272 | 230 | 84.5588 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | het | 85.5513 | 76.7765 | 96.5908 | 86.8303 | 8017 | 2425 | 8018 | 283 | 230 | 81.2721 | |
| ltrigg-rtg2 | INDEL | * | * | het | 99.3348 | 99.1568 | 99.5135 | 56.1055 | 192496 | 1637 | 191657 | 937 | 230 | 24.5464 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 57.4030 | 44.5498 | 80.6804 | 63.6484 | 1410 | 1755 | 1328 | 318 | 230 | 72.3270 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.6443 | 95.4077 | 91.9449 | 64.3247 | 4633 | 223 | 4874 | 427 | 230 | 53.8642 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 55.3043 | 53.2020 | 57.5796 | 52.8812 | 324 | 285 | 452 | 333 | 230 | 69.0691 | |
| ckim-vqsr | INDEL | I1_5 | HG002compoundhet | homalt | 73.9572 | 99.6960 | 58.7814 | 88.6470 | 328 | 1 | 328 | 230 | 230 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 81.5800 | 75.0000 | 89.4256 | 42.8500 | 2067 | 689 | 2055 | 243 | 230 | 94.6502 | |
| cchapple-custom | SNP | ti | map_l125_m2_e0 | * | 97.1171 | 96.9958 | 97.2387 | 74.5555 | 29349 | 909 | 29334 | 833 | 230 | 27.6110 | |
| cchapple-custom | SNP | ti | map_l125_m2_e1 | * | 97.1333 | 97.0166 | 97.2504 | 74.6114 | 29657 | 912 | 29639 | 838 | 230 | 27.4463 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3951 | 99.8402 | 98.9540 | 76.8921 | 21864 | 35 | 21853 | 231 | 230 | 99.5671 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 60.3225 | 50.6015 | 74.6667 | 66.7122 | 673 | 657 | 728 | 247 | 230 | 93.1174 | |
| ciseli-custom | SNP | * | HG002compoundhet | het | 65.9081 | 78.7276 | 56.6789 | 49.8597 | 11162 | 3016 | 11240 | 8591 | 230 | 2.6772 | |
| cchapple-custom | SNP | ti | map_l125_m2_e0 | het | 96.4167 | 97.1816 | 95.6637 | 78.2290 | 18344 | 532 | 18355 | 832 | 229 | 27.5240 | |
| cchapple-custom | SNP | ti | map_l125_m2_e1 | het | 96.4352 | 97.1970 | 95.6851 | 78.2763 | 18552 | 535 | 18561 | 837 | 229 | 27.3596 | |
| ckim-dragen | SNP | * | map_siren | * | 98.9989 | 99.5042 | 98.4987 | 58.4236 | 145503 | 725 | 145517 | 2218 | 229 | 10.3246 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | het | 85.2256 | 76.2789 | 96.5500 | 86.2555 | 7724 | 2402 | 7724 | 276 | 229 | 82.9710 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.3115 | 96.3071 | 98.3370 | 59.4348 | 15178 | 582 | 15020 | 254 | 229 | 90.1575 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | homalt | 53.4856 | 42.2526 | 72.8541 | 73.1257 | 679 | 928 | 679 | 253 | 229 | 90.5138 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1966 | 96.0492 | 98.3718 | 68.1010 | 17115 | 704 | 16736 | 277 | 229 | 82.6715 | |
| jpowers-varprowl | INDEL | I16_PLUS | HG002complexvar | het | 71.5885 | 75.0376 | 68.4426 | 63.7803 | 499 | 166 | 501 | 231 | 229 | 99.1342 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4970 | 97.1756 | 97.8206 | 52.8939 | 10769 | 313 | 10772 | 240 | 229 | 95.4167 | |
| cchapple-custom | INDEL | I1_5 | * | homalt | 99.7155 | 99.8147 | 99.6166 | 51.9774 | 60316 | 112 | 59755 | 230 | 228 | 99.1304 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5436 | 96.2382 | 98.8849 | 41.9802 | 21413 | 837 | 22170 | 250 | 228 | 91.2000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 59.0350 | 46.7546 | 80.0643 | 63.0729 | 1311 | 1493 | 1245 | 310 | 228 | 73.5484 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002complexvar | het | 78.0918 | 86.6165 | 71.0947 | 66.0117 | 576 | 89 | 578 | 235 | 228 | 97.0213 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3583 | 99.6679 | 91.4059 | 82.1531 | 3902 | 13 | 3914 | 368 | 228 | 61.9565 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 4.7196 | 2.6063 | 24.9453 | 76.2474 | 106 | 3961 | 114 | 343 | 228 | 66.4723 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 9.3373 | 5.7895 | 24.1150 | 76.0466 | 77 | 1253 | 109 | 343 | 228 | 66.4723 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.5380 | 73.1417 | 97.3796 | 64.9640 | 10814 | 3971 | 10814 | 291 | 228 | 78.3505 | |
| cchapple-custom | SNP | ti | map_l125_m1_e0 | * | 97.0755 | 96.9422 | 97.2092 | 72.6876 | 28438 | 897 | 28423 | 816 | 227 | 27.8186 | |
| ghariani-varprowl | SNP | * | map_l100_m0_e0 | * | 97.6658 | 98.4806 | 96.8644 | 74.2691 | 32342 | 499 | 32344 | 1047 | 227 | 21.6810 | |
| ltrigg-rtg2 | INDEL | * | HG002complexvar | * | 98.9919 | 98.4780 | 99.5112 | 54.8986 | 75766 | 1171 | 75523 | 371 | 227 | 61.1860 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1176 | 97.7691 | 98.4687 | 60.2554 | 15689 | 358 | 15690 | 244 | 227 | 93.0328 | |
| jmaeng-gatk | INDEL | I1_5 | HG002compoundhet | homalt | 73.9819 | 99.3921 | 58.9189 | 89.0727 | 327 | 2 | 327 | 228 | 227 | 99.5614 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 53.8085 | 55.7377 | 52.0085 | 38.7306 | 68 | 54 | 246 | 227 | 226 | 99.5595 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 86.9083 | 88.9474 | 84.9606 | 72.8067 | 1183 | 147 | 1401 | 248 | 226 | 91.1290 | |
| gduggal-snapplat | INDEL | D6_15 | HG002compoundhet | homalt | 5.2905 | 29.1667 | 2.9091 | 54.3189 | 7 | 17 | 8 | 267 | 226 | 84.6442 | |
| gduggal-snapvard | SNP | ti | map_l125_m2_e1 | * | 93.9227 | 96.2838 | 91.6745 | 79.2018 | 29433 | 1136 | 29158 | 2648 | 226 | 8.5347 | |
| cchapple-custom | SNP | ti | map_l125_m1_e0 | het | 96.3594 | 97.1203 | 95.6103 | 76.7136 | 17740 | 526 | 17751 | 815 | 226 | 27.7301 | |
| ckim-gatk | INDEL | * | HG002complexvar | * | 99.3276 | 99.0226 | 99.6345 | 58.1713 | 76186 | 752 | 76048 | 279 | 226 | 81.0036 | |