PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2201-2250 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | ti | map_l100_m1_e0 | het | 92.7314 | 88.0536 | 97.9342 | 80.4366 | 26365 | 3577 | 26358 | 556 | 60 | 10.7914 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | * | 82.1492 | 71.0667 | 97.3270 | 74.9005 | 8781 | 3575 | 8775 | 241 | 126 | 52.2822 | |
| cchapple-custom | SNP | * | * | * | 99.8448 | 99.8832 | 99.8063 | 20.8246 | 3051052 | 3567 | 3049557 | 5917 | 726 | 12.2697 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 25.3353 | 0.0000 | 0.0000 | 1209 | 3563 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 0.0000 | 0 | 3561 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 0.1123 | 0.0562 | 100.0000 | 0.0000 | 2 | 3559 | 1 | 0 | 0 | ||
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.6766 | 79.8823 | 85.6735 | 55.5568 | 14116 | 3555 | 14119 | 2361 | 2322 | 98.3482 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.6766 | 79.8823 | 85.6735 | 55.5568 | 14116 | 3555 | 14119 | 2361 | 2322 | 98.3482 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 37.4948 | 41.7896 | 34.0005 | 84.4865 | 2550 | 3552 | 2650 | 5144 | 58 | 1.1275 | |
| ciseli-custom | SNP | * | map_l150_m0_e0 | * | 75.3031 | 70.4787 | 80.8364 | 85.2202 | 8480 | 3552 | 8466 | 2007 | 507 | 25.2616 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | * | 70.7185 | 55.5778 | 97.1973 | 96.3060 | 4439 | 3548 | 4439 | 128 | 10 | 7.8125 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 64.4666 | 47.9448 | 98.3624 | 43.7187 | 3266 | 3546 | 2763 | 46 | 36 | 78.2609 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 67.3074 | 57.8428 | 80.4752 | 45.6223 | 4864 | 3545 | 13445 | 3262 | 3175 | 97.3329 | |
| ckim-isaac | SNP | * | map_l125_m0_e0 | homalt | 64.1166 | 47.1990 | 99.9369 | 61.5104 | 3168 | 3544 | 3168 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 49.1489 | 40.2731 | 63.0429 | 36.1826 | 2389 | 3543 | 4848 | 2842 | 2348 | 82.6179 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 43.7022 | 33.3459 | 63.3893 | 74.0345 | 1772 | 3542 | 1773 | 1024 | 981 | 95.8008 | |
| ckim-isaac | SNP | ti | map_l150_m0_e0 | * | 70.8651 | 54.9676 | 99.7000 | 80.5441 | 4321 | 3540 | 4321 | 13 | 3 | 23.0769 | |
| ckim-gatk | SNP | * | map_l250_m2_e1 | * | 70.8260 | 55.7155 | 97.1828 | 96.2381 | 4450 | 3537 | 4450 | 129 | 10 | 7.7519 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | * | 70.5188 | 55.3329 | 97.1931 | 96.2932 | 4363 | 3522 | 4363 | 126 | 10 | 7.9365 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 80.9710 | 68.2936 | 99.4281 | 31.4166 | 7584 | 3521 | 7649 | 44 | 44 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l125_m0_e0 | * | 63.5371 | 46.9462 | 98.2639 | 92.6176 | 3113 | 3518 | 3113 | 55 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 57.7607 | 47.6176 | 73.3945 | 69.4184 | 3198 | 3518 | 4720 | 1711 | 398 | 23.2613 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.3403 | 0.0000 | 0.0000 | 12 | 3514 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.3403 | 0.0000 | 0.0000 | 12 | 3514 | 0 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l250_m2_e0 | * | 70.6281 | 55.4724 | 97.1784 | 96.2246 | 4374 | 3511 | 4374 | 127 | 10 | 7.8740 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002compoundhet | * | 81.6558 | 71.3118 | 95.5098 | 73.5540 | 8725 | 3510 | 8721 | 410 | 263 | 64.1463 | |
| gduggal-snapplat | INDEL | I6_15 | HG002complexvar | * | 38.3420 | 26.7738 | 67.5124 | 60.4148 | 1283 | 3509 | 1224 | 589 | 145 | 24.6180 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.4821 | 0.0000 | 0.0000 | 17 | 3509 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.4821 | 0.0000 | 0.0000 | 17 | 3509 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 74.2102 | 70.4505 | 78.3938 | 47.6036 | 8366 | 3509 | 8356 | 2303 | 2257 | 98.0026 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.6523 | 0.0000 | 0.0000 | 23 | 3503 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.6523 | 0.0000 | 0.0000 | 23 | 3503 | 0 | 0 | 0 | ||
| gduggal-snapvard | SNP | ti | HG002compoundhet | * | 79.9822 | 79.9565 | 80.0079 | 49.1293 | 13974 | 3503 | 14163 | 3539 | 1489 | 42.0740 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | homalt | 56.5095 | 47.8546 | 68.9863 | 54.6729 | 3212 | 3500 | 3212 | 1444 | 1335 | 92.4515 | |
| ckim-gatk | SNP | tv | * | homalt | 99.5305 | 99.0738 | 99.9914 | 20.3623 | 373630 | 3493 | 373616 | 32 | 19 | 59.3750 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | het | 41.8044 | 26.6036 | 97.5328 | 80.1621 | 1265 | 3490 | 1265 | 32 | 1 | 3.1250 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | homalt | 25.5918 | 14.6735 | 100.0000 | 95.2449 | 600 | 3489 | 600 | 0 | 0 | ||
| ciseli-custom | INDEL | * | HG002complexvar | hetalt | 0.0000 | 5.8394 | 0.0000 | 0.0000 | 216 | 3483 | 0 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.2975 | 70.7032 | 98.4402 | 61.5346 | 8396 | 3479 | 8394 | 133 | 53 | 39.8496 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 58.8795 | 58.5755 | 59.1866 | 73.4509 | 4918 | 3478 | 6913 | 4767 | 1577 | 33.0816 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 1.4180 | 0.0000 | 0.0000 | 50 | 3476 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 1.4180 | 0.0000 | 0.0000 | 50 | 3476 | 0 | 0 | 0 | ||
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | homalt | 36.9577 | 22.6676 | 100.0000 | 90.0284 | 1018 | 3473 | 1018 | 0 | 0 | ||
| jpowers-varprowl | SNP | ti | HG002complexvar | * | 99.5182 | 99.3169 | 99.7203 | 18.7923 | 504961 | 3473 | 505119 | 1417 | 799 | 56.3867 | |
| jmaeng-gatk | SNP | tv | * | homalt | 99.5328 | 99.0793 | 99.9904 | 20.3157 | 373651 | 3472 | 373637 | 36 | 23 | 63.8889 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 56.0755 | 41.6302 | 85.8726 | 84.0433 | 2472 | 3466 | 2480 | 408 | 341 | 83.5784 | |
| ckim-vqsr | SNP | * | map_l150_m0_e0 | het | 71.5668 | 56.3476 | 98.0495 | 94.3303 | 4474 | 3466 | 4474 | 89 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 67.4226 | 63.3961 | 71.9952 | 36.3292 | 5996 | 3462 | 6044 | 2351 | 2331 | 99.1493 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 5.1744 | 2.8363 | 29.4574 | 72.6502 | 101 | 3460 | 114 | 273 | 176 | 64.4689 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | homalt | 63.6297 | 55.5184 | 74.5166 | 48.8430 | 4316 | 3458 | 4316 | 1476 | 1404 | 95.1220 | |