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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49551-49600 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 62.1033 | 45.2072 | 99.1667 | 43.6090 | 731 | 886 | 595 | 5 | 4 | 80.0000 | |
| mlin-fermikit | INDEL | * | map_l100_m1_e0 | hetalt | 61.8722 | 45.1613 | 98.2143 | 85.2632 | 56 | 68 | 55 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | het | 61.8597 | 45.1531 | 98.1895 | 65.2404 | 13238 | 16080 | 13233 | 244 | 8 | 3.2787 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | homalt | 62.1444 | 45.1510 | 99.6491 | 95.8315 | 284 | 345 | 284 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l250_m2_e1 | homalt | 62.1996 | 45.1374 | 100.0000 | 93.8825 | 427 | 519 | 427 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 48.3943 | 45.1362 | 52.1594 | 60.4503 | 7243 | 8804 | 7210 | 6613 | 6501 | 98.3064 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 48.9231 | 45.1335 | 53.4074 | 60.1656 | 997 | 1212 | 1105 | 964 | 732 | 75.9336 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 59.5098 | 45.1054 | 87.4307 | 85.0479 | 4193 | 5103 | 4257 | 612 | 532 | 86.9281 | |
| ckim-gatk | SNP | tv | map_l250_m0_e0 | * | 61.2245 | 45.0980 | 95.3039 | 98.2741 | 345 | 420 | 345 | 17 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | map_l250_m0_e0 | het | 61.5036 | 45.0863 | 96.7236 | 98.5089 | 679 | 827 | 679 | 23 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 35.9477 | 45.0820 | 29.8913 | 77.7240 | 55 | 67 | 55 | 129 | 117 | 90.6977 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 61.3722 | 45.0807 | 96.1020 | 31.7355 | 3267 | 3980 | 3353 | 136 | 135 | 99.2647 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 52.6463 | 45.0798 | 63.2653 | 66.5529 | 339 | 413 | 372 | 216 | 150 | 69.4444 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.8657 | 45.0761 | 89.0995 | 75.7842 | 563 | 686 | 564 | 69 | 66 | 95.6522 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 62.0743 | 45.0588 | 99.7382 | 47.8142 | 383 | 467 | 381 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 61.8938 | 45.0533 | 98.8388 | 35.9607 | 2450 | 2988 | 2128 | 25 | 22 | 88.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e0 | het | 60.8031 | 45.0382 | 93.5484 | 89.8527 | 59 | 72 | 58 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l250_m1_e0 | het | 62.0690 | 45.0000 | 100.0000 | 99.0193 | 27 | 33 | 27 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l150_m1_e0 | hetalt | 62.0690 | 45.0000 | 100.0000 | 94.3396 | 9 | 11 | 9 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l150_m2_e0 | hetalt | 62.0690 | 45.0000 | 100.0000 | 95.1613 | 9 | 11 | 9 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | hetalt | 62.0690 | 45.0000 | 100.0000 | 95.1872 | 9 | 11 | 9 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | map_l150_m1_e0 | hetalt | 62.0690 | 45.0000 | 100.0000 | 94.3396 | 9 | 11 | 9 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | map_l150_m2_e0 | hetalt | 62.0690 | 45.0000 | 100.0000 | 95.1613 | 9 | 11 | 9 | 0 | 0 | ||
| gduggal-bwaplat | SNP | tv | map_l150_m2_e1 | hetalt | 62.0690 | 45.0000 | 100.0000 | 95.1872 | 9 | 11 | 9 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e1 | hetalt | 62.0690 | 45.0000 | 100.0000 | 87.0968 | 9 | 11 | 16 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 0.0000 | 45.0000 | 0.0000 | 0.0000 | 27 | 33 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.7633 | 44.9960 | 88.9590 | 75.7274 | 562 | 687 | 564 | 70 | 67 | 95.7143 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e1 | het | 61.6520 | 44.9730 | 97.9955 | 67.0300 | 4746 | 5807 | 4742 | 97 | 1 | 1.0309 | |
| mlin-fermikit | SNP | tv | map_l150_m0_e0 | homalt | 51.4655 | 44.9548 | 60.1815 | 60.0161 | 597 | 731 | 597 | 395 | 356 | 90.1266 | |
| ckim-gatk | SNP | ti | map_l250_m0_e0 | homalt | 62.0253 | 44.9541 | 100.0000 | 95.9004 | 196 | 240 | 196 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 47.8508 | 44.9290 | 51.1791 | 74.3426 | 2246 | 2753 | 2257 | 2153 | 2109 | 97.9563 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 47.8508 | 44.9290 | 51.1791 | 74.3426 | 2246 | 2753 | 2257 | 2153 | 2109 | 97.9563 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e1 | homalt | 61.9534 | 44.9260 | 99.7653 | 93.4872 | 425 | 521 | 425 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | homalt | 61.9730 | 44.9065 | 99.9639 | 77.0833 | 8305 | 10189 | 8305 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 61.4597 | 44.8804 | 97.4636 | 72.8689 | 2665 | 3273 | 4957 | 129 | 121 | 93.7984 | |
| ckim-isaac | SNP | ti | map_l250_m1_e0 | homalt | 61.8884 | 44.8662 | 99.7234 | 82.9922 | 721 | 886 | 721 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 61.3581 | 44.8472 | 97.1096 | 76.3054 | 4169 | 5127 | 5006 | 149 | 142 | 95.3020 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 51.2305 | 44.8305 | 59.7622 | 50.2699 | 7922 | 9749 | 8093 | 5449 | 4223 | 77.5005 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m2_e1 | homalt | 60.5657 | 44.8276 | 93.3333 | 84.5361 | 13 | 16 | 14 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.8995 | 44.8091 | 95.0199 | 66.3989 | 669 | 824 | 954 | 50 | 47 | 94.0000 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e0 | hetalt | 61.5385 | 44.8000 | 98.2456 | 86.6822 | 56 | 69 | 56 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | map_l125_m2_e0 | het | 61.4279 | 44.7328 | 98.0050 | 66.8730 | 4671 | 5771 | 4667 | 95 | 1 | 1.0526 | |
| ckim-gatk | SNP | tv | map_l250_m2_e0 | homalt | 61.7994 | 44.7172 | 100.0000 | 93.9099 | 419 | 518 | 419 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 52.1835 | 44.7148 | 62.6476 | 54.5878 | 2720 | 3363 | 3237 | 1930 | 985 | 51.0363 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 52.1262 | 44.7059 | 62.5000 | 60.0000 | 38 | 47 | 20 | 12 | 9 | 75.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 47.5210 | 44.6987 | 50.7237 | 69.1756 | 801 | 991 | 806 | 783 | 771 | 98.4674 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 61.7761 | 44.6927 | 100.0000 | 30.6667 | 80 | 99 | 52 | 0 | 0 | ||