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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4401-4450 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8203 | 99.3835 | 98.2634 | 72.4925 | 30951 | 192 | 30951 | 547 | 35 | 6.3985 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.9597 | 78.8934 | 79.0261 | 42.0187 | 385 | 103 | 2061 | 547 | 541 | 98.9031 | |
| ghariani-varprowl | SNP | ti | map_l150_m1_e0 | * | 97.8236 | 98.3918 | 97.2619 | 78.7439 | 19395 | 317 | 19395 | 546 | 133 | 24.3590 | |
| gduggal-snapplat | SNP | tv | map_l150_m2_e0 | het | 91.9870 | 91.5747 | 92.4029 | 88.3430 | 6641 | 611 | 6641 | 546 | 288 | 52.7473 | |
| ciseli-custom | INDEL | I6_15 | HG002complexvar | * | 36.3268 | 24.7913 | 67.9389 | 56.5783 | 1188 | 3604 | 1157 | 546 | 471 | 86.2637 | |
| ckim-gatk | SNP | * | map_l150_m2_e1 | * | 80.8459 | 69.0003 | 97.6016 | 88.7044 | 22225 | 9985 | 22219 | 546 | 44 | 8.0586 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 17.1893 | 11.5659 | 33.4554 | 78.2586 | 243 | 1858 | 274 | 545 | 283 | 51.9266 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | homalt | 95.8338 | 95.7466 | 95.9213 | 42.3182 | 12876 | 572 | 12817 | 545 | 363 | 66.6055 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.5684 | 96.5352 | 96.6016 | 59.0391 | 15491 | 556 | 15492 | 545 | 381 | 69.9083 | |
| gduggal-bwafb | SNP | * | map_l125_m1_e0 | * | 98.8277 | 98.8550 | 98.8005 | 72.4101 | 44808 | 519 | 44808 | 544 | 134 | 24.6324 | |
| eyeh-varpipe | SNP | tv | map_l150_m2_e1 | * | 97.5383 | 99.7218 | 95.4485 | 79.1599 | 11470 | 32 | 11408 | 544 | 14 | 2.5735 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | * | 98.8559 | 98.4299 | 99.2857 | 62.5855 | 75730 | 1208 | 75611 | 544 | 244 | 44.8529 | |
| ghariani-varprowl | SNP | ti | map_l150_m2_e0 | het | 97.2721 | 98.6880 | 95.8962 | 82.5739 | 12712 | 169 | 12712 | 544 | 123 | 22.6103 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.5202 | 96.8720 | 84.9501 | 59.2685 | 3066 | 99 | 3065 | 543 | 542 | 99.8158 | |
| qzeng-custom | INDEL | * | map_siren | * | 89.0924 | 85.8165 | 92.6283 | 83.9353 | 6359 | 1051 | 6823 | 543 | 116 | 21.3628 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2920 | 98.3891 | 98.1951 | 74.4975 | 29989 | 491 | 29542 | 543 | 428 | 78.8214 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.7838 | 93.8345 | 80.7186 | 89.0750 | 2222 | 146 | 2269 | 542 | 180 | 33.2103 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2940 | 99.3207 | 97.2884 | 75.8975 | 19446 | 133 | 19446 | 542 | 30 | 5.5351 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2940 | 99.3207 | 97.2884 | 75.8975 | 19446 | 133 | 19446 | 542 | 30 | 5.5351 | |
| ckim-gatk | SNP | * | map_l150_m2_e1 | het | 85.0232 | 75.9171 | 96.6114 | 90.2821 | 15459 | 4904 | 15453 | 542 | 42 | 7.7491 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.7163 | 99.4919 | 90.3781 | 51.0003 | 5091 | 26 | 5091 | 542 | 540 | 99.6310 | |
| eyeh-varpipe | SNP | tv | map_l150_m2_e0 | * | 97.5167 | 99.7182 | 95.4103 | 79.1143 | 11323 | 32 | 11267 | 542 | 14 | 2.5830 | |
| eyeh-varpipe | INDEL | D1_5 | HG002complexvar | homalt | 96.8706 | 98.8677 | 94.9525 | 54.3549 | 10478 | 120 | 10196 | 542 | 535 | 98.7085 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 28.5107 | 24.0260 | 35.0540 | 65.4357 | 296 | 936 | 292 | 541 | 480 | 88.7246 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 35.1776 | 30.1901 | 42.1390 | 49.2400 | 397 | 918 | 394 | 541 | 481 | 88.9094 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | * | 80.0329 | 67.8918 | 97.4620 | 88.1625 | 20781 | 9828 | 20775 | 541 | 41 | 7.5786 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.3664 | 93.9516 | 62.9198 | 85.7017 | 932 | 60 | 918 | 541 | 10 | 1.8484 | |
| mlin-fermikit | SNP | * | map_l250_m2_e1 | homalt | 53.1320 | 43.3775 | 68.5465 | 76.1343 | 1179 | 1539 | 1179 | 541 | 500 | 92.4214 | |
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | * | 93.7462 | 92.1291 | 95.4211 | 64.7145 | 11272 | 963 | 11274 | 541 | 497 | 91.8669 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.5468 | 98.7790 | 92.5194 | 46.8470 | 6634 | 82 | 6691 | 541 | 498 | 92.0518 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7633 | 97.2714 | 98.2602 | 58.6360 | 30551 | 857 | 30554 | 541 | 494 | 91.3124 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7633 | 97.2714 | 98.2602 | 58.6360 | 30551 | 857 | 30554 | 541 | 494 | 91.3124 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.4564 | 98.1618 | 96.7610 | 58.8376 | 16127 | 302 | 16132 | 540 | 515 | 95.3704 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | het | 84.2606 | 74.8343 | 96.4038 | 89.9614 | 14455 | 4861 | 14449 | 539 | 39 | 7.2356 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.0231 | 94.1723 | 93.8743 | 38.5973 | 1519 | 94 | 8260 | 539 | 525 | 97.4026 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6687 | 97.3228 | 98.0171 | 65.4411 | 26937 | 741 | 26644 | 539 | 197 | 36.5492 | |
| ciseli-custom | INDEL | * | map_l100_m2_e1 | het | 73.2415 | 70.9774 | 75.6549 | 89.0075 | 1663 | 680 | 1675 | 539 | 319 | 59.1837 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4857 | 98.0964 | 96.8826 | 61.5590 | 15460 | 300 | 16751 | 539 | 278 | 51.5770 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | het | 70.6925 | 67.2036 | 74.5635 | 86.2608 | 1502 | 733 | 1580 | 539 | 154 | 28.5714 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9413 | 99.8121 | 98.0856 | 65.0500 | 27626 | 52 | 27616 | 539 | 26 | 4.8238 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e0 | het | 98.4559 | 98.7380 | 98.1754 | 76.1231 | 28948 | 370 | 28948 | 538 | 123 | 22.8625 | |
| gduggal-bwafb | SNP | * | map_l125_m2_e1 | het | 98.4726 | 98.7517 | 98.1951 | 76.1869 | 29270 | 370 | 29270 | 538 | 123 | 22.8625 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 47.7941 | 75.5844 | 34.9456 | 64.9725 | 291 | 94 | 289 | 538 | 478 | 88.8476 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.4419 | 95.8245 | 95.0624 | 80.9574 | 10350 | 451 | 10358 | 538 | 336 | 62.4535 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| ghariani-varprowl | SNP | ti | map_l100_m0_e0 | het | 97.4217 | 98.6269 | 96.2456 | 76.6277 | 13791 | 192 | 13792 | 538 | 130 | 24.1636 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9439 | 96.7636 | 99.1534 | 64.2879 | 63236 | 2115 | 63011 | 538 | 416 | 77.3234 | |