PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11001-11050 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | * | 90.6795 | 84.1100 | 98.3622 | 53.8256 | 1101 | 208 | 1021 | 17 | 16 | 94.1176 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.4353 | 99.2278 | 93.7956 | 60.2322 | 257 | 2 | 257 | 17 | 16 | 94.1176 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6973 | 94.5364 | 98.9593 | 25.4960 | 6454 | 373 | 6466 | 68 | 64 | 94.1176 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.9885 | 94.6447 | 99.4513 | 62.5582 | 5620 | 318 | 6163 | 34 | 32 | 94.1176 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.8385 | 87.0031 | 99.5129 | 39.9105 | 3327 | 497 | 3473 | 17 | 16 | 94.1176 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.0981 | 99.5935 | 96.6469 | 61.7358 | 490 | 2 | 490 | 17 | 16 | 94.1176 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 92.9368 | 98.4252 | 88.0282 | 53.4426 | 125 | 2 | 125 | 17 | 16 | 94.1176 | |
| anovak-vg | INDEL | I16_PLUS | map_siren | homalt | 55.0459 | 66.6667 | 46.8750 | 67.3469 | 14 | 7 | 15 | 17 | 16 | 94.1176 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.9798 | 99.3852 | 96.6135 | 72.1575 | 485 | 3 | 485 | 17 | 16 | 94.1176 | |
| astatham-gatk | SNP | ti | map_siren | homalt | 99.7489 | 99.5437 | 99.9550 | 48.8366 | 37743 | 173 | 37737 | 17 | 16 | 94.1176 | |
| astatham-gatk | SNP | tv | HG002compoundhet | * | 99.1767 | 98.5543 | 99.8069 | 49.0836 | 8794 | 129 | 8789 | 17 | 16 | 94.1176 | |
| asubramanian-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 87.8383 | 97.0370 | 80.2326 | 59.6717 | 393 | 12 | 276 | 68 | 64 | 94.1176 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.6055 | 95.7176 | 99.5693 | 26.7854 | 7823 | 350 | 7860 | 34 | 32 | 94.1176 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.0173 | 99.3569 | 94.7853 | 69.0702 | 309 | 2 | 309 | 17 | 16 | 94.1176 | |
| hfeng-pmm1 | SNP | * | HG002complexvar | homalt | 99.9818 | 99.9754 | 99.9882 | 20.0017 | 288503 | 71 | 288488 | 34 | 32 | 94.1176 | |
| rpoplin-dv42 | INDEL | I1_5 | * | hetalt | 96.4651 | 93.5954 | 99.5163 | 62.8772 | 10478 | 717 | 10493 | 51 | 48 | 94.1176 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.4850 | 97.5225 | 97.4474 | 70.6155 | 1299 | 33 | 1298 | 34 | 32 | 94.1176 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.9798 | 99.3852 | 96.6135 | 70.8648 | 485 | 3 | 485 | 17 | 16 | 94.1176 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 80.2236 | 77.7778 | 82.8283 | 72.1910 | 105 | 30 | 82 | 17 | 16 | 94.1176 | |
| ciseli-custom | INDEL | I6_15 | segdup | homalt | 42.7935 | 38.2979 | 48.4848 | 89.2157 | 18 | 29 | 16 | 17 | 16 | 94.1176 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4003 | 99.3113 | 99.4894 | 56.4059 | 6633 | 46 | 6625 | 34 | 32 | 94.1176 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6637 | 96.7532 | 98.5915 | 61.0394 | 1192 | 40 | 1190 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m1_e0 | homalt | 99.5597 | 99.2757 | 99.8453 | 60.3228 | 10965 | 80 | 10970 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m2_e0 | homalt | 99.5541 | 99.2604 | 99.8495 | 63.2256 | 11274 | 84 | 11279 | 17 | 16 | 94.1176 | |
| ckim-dragen | SNP | ti | map_l125_m2_e1 | homalt | 99.5580 | 99.2669 | 99.8508 | 63.2612 | 11374 | 84 | 11379 | 17 | 16 | 94.1176 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 9.8376 | 5.2308 | 82.4742 | 81.6635 | 51 | 924 | 80 | 17 | 16 | 94.1176 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 29.7335 | 17.6883 | 93.2000 | 52.5617 | 101 | 470 | 233 | 17 | 16 | 94.1176 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 28.4562 | 16.8067 | 92.7350 | 41.3166 | 860 | 4257 | 868 | 68 | 64 | 94.1176 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 56.7901 | 56.0976 | 57.5000 | 80.9524 | 23 | 18 | 23 | 17 | 16 | 94.1176 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9251 | 78.3877 | 83.6323 | 72.4014 | 50506 | 13925 | 50171 | 9819 | 9240 | 94.1033 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.2553 | 98.3091 | 76.8345 | 75.3229 | 32674 | 562 | 32511 | 9802 | 9224 | 94.1032 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.7372 | 91.6432 | 54.9921 | 52.9543 | 976 | 89 | 1388 | 1136 | 1069 | 94.1021 | |
| mlin-fermikit | SNP | tv | HG002complexvar | * | 98.1368 | 97.0653 | 99.2323 | 22.0366 | 238931 | 7224 | 238861 | 1848 | 1739 | 94.1017 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | homalt | 64.9030 | 58.3635 | 73.0928 | 57.1933 | 3545 | 2529 | 3545 | 1305 | 1228 | 94.0996 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0372 | 96.1312 | 97.9605 | 45.4439 | 14213 | 572 | 15466 | 322 | 303 | 94.0994 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.5285 | 98.5118 | 96.5646 | 71.5859 | 5759 | 87 | 5706 | 203 | 191 | 94.0887 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 89.5893 | 84.9685 | 94.7416 | 48.7318 | 7145 | 1264 | 13711 | 761 | 716 | 94.0867 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.8521 | 85.8447 | 83.8821 | 72.0175 | 752 | 124 | 968 | 186 | 175 | 94.0860 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 47.6114 | 41.5540 | 55.7361 | 61.7356 | 1690 | 2377 | 1681 | 1335 | 1256 | 94.0824 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| ciseli-custom | INDEL | I1_5 | * | homalt | 89.1001 | 89.2384 | 88.9622 | 46.9528 | 53925 | 6503 | 53678 | 6660 | 6265 | 94.0691 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | homalt | 99.7212 | 99.8779 | 99.5650 | 57.3567 | 26994 | 33 | 27007 | 118 | 111 | 94.0678 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | het | 77.1850 | 70.0212 | 85.9817 | 41.0929 | 1649 | 706 | 2067 | 337 | 317 | 94.0653 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2233 | 91.0156 | 95.5407 | 66.1212 | 9168 | 905 | 9020 | 421 | 396 | 94.0618 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | * | 72.9303 | 63.6686 | 85.3453 | 43.1989 | 3051 | 1741 | 3040 | 522 | 491 | 94.0613 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 66.8599 | 89.2948 | 53.4347 | 70.0637 | 1760 | 211 | 1758 | 1532 | 1441 | 94.0601 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 66.8599 | 89.2948 | 53.4347 | 70.0637 | 1760 | 211 | 1758 | 1532 | 1441 | 94.0601 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.4668 | 92.7820 | 94.1618 | 66.2439 | 617 | 48 | 1629 | 101 | 95 | 94.0594 | |