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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13501-13550 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 83.1683 | 97.6744 | 72.4138 | 74.4493 | 42 | 1 | 42 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.8272 | 96.9199 | 96.7347 | 59.5376 | 472 | 15 | 474 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 95.5612 | 96.1290 | 95.0000 | 81.4600 | 149 | 6 | 152 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.1732 | 97.8142 | 98.5348 | 74.0741 | 537 | 12 | 538 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 39.0244 | 32.0000 | 50.0000 | 68.0000 | 8 | 17 | 8 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | homalt | 83.6364 | 95.8333 | 74.1935 | 78.9116 | 23 | 1 | 23 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7631 | 98.9728 | 98.5542 | 60.1632 | 1638 | 17 | 1636 | 24 | 21 | 87.5000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | * | hetalt | 91.5838 | 84.7950 | 99.5541 | 49.0051 | 1779 | 319 | 1786 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002complexvar | homalt | 96.5785 | 95.7929 | 97.3770 | 64.6991 | 296 | 13 | 297 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 92.6528 | 90.4762 | 94.9367 | 73.7977 | 152 | 16 | 150 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.1212 | 93.8272 | 90.4762 | 75.3666 | 76 | 5 | 76 | 8 | 7 | 87.5000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.4198 | 78.3582 | 96.3303 | 63.2997 | 420 | 116 | 420 | 16 | 14 | 87.5000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5640 | 99.8834 | 97.2789 | 52.9349 | 857 | 1 | 858 | 24 | 21 | 87.5000 | |
| mlin-fermikit | SNP | tv | func_cds | homalt | 99.4152 | 99.7653 | 99.0676 | 23.6994 | 1700 | 4 | 1700 | 16 | 14 | 87.5000 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.1682 | 99.4444 | 98.8935 | 86.9353 | 716 | 4 | 715 | 8 | 7 | 87.5000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5586 | 84.7305 | 97.2477 | 63.2687 | 849 | 153 | 848 | 24 | 21 | 87.5000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.1120 | 87.5000 | 67.3469 | 73.6559 | 21 | 3 | 33 | 16 | 14 | 87.5000 | |
| qzeng-custom | SNP | tv | HG002compoundhet | homalt | 98.8473 | 99.1145 | 98.5816 | 49.2075 | 3358 | 30 | 2780 | 40 | 35 | 87.5000 | |
| qzeng-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7805 | 99.7685 | 99.7926 | 58.3234 | 3878 | 9 | 3850 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 76.3362 | 74.6667 | 78.0822 | 54.3750 | 56 | 19 | 57 | 16 | 14 | 87.5000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.8820 | 73.9003 | 96.9811 | 55.3120 | 252 | 89 | 257 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 84.5480 | 74.7368 | 97.3244 | 58.8721 | 284 | 96 | 291 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 87.9184 | 79.6226 | 98.1439 | 49.1745 | 422 | 108 | 423 | 8 | 7 | 87.5000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.1695 | 90.0530 | 98.6804 | 37.0620 | 2381 | 263 | 2393 | 32 | 28 | 87.5000 | |
| ndellapenna-hhga | INDEL | I6_15 | map_siren | * | 94.7899 | 92.4590 | 97.2414 | 82.6762 | 282 | 23 | 282 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | * | tech_badpromoters | homalt | 76.1124 | 75.7576 | 76.4706 | 47.6923 | 25 | 8 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 49.6562 | 36.7647 | 76.4706 | 96.4620 | 25 | 43 | 26 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 64.7059 | 73.3333 | 57.8947 | 97.5734 | 11 | 4 | 11 | 8 | 7 | 87.5000 | |
| anovak-vg | INDEL | I6_15 | func_cds | homalt | 75.6757 | 93.3333 | 63.6364 | 35.2941 | 14 | 1 | 14 | 8 | 7 | 87.5000 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.3912 | 98.6014 | 98.1818 | 44.9656 | 846 | 12 | 864 | 16 | 14 | 87.5000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.8944 | 97.9221 | 97.8667 | 79.3046 | 377 | 8 | 367 | 8 | 7 | 87.5000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.7905 | 99.6289 | 99.9527 | 66.4771 | 16912 | 63 | 16912 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3312 | 99.2264 | 99.4362 | 88.4220 | 1411 | 11 | 1411 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.3884 | 99.2047 | 99.5729 | 68.2811 | 1871 | 15 | 1865 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.9373 | 88.3333 | 95.8478 | 79.7335 | 424 | 56 | 554 | 24 | 21 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | homalt | 98.6256 | 97.6045 | 99.6683 | 85.3151 | 2404 | 59 | 2404 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e0 | homalt | 98.6837 | 97.6917 | 99.6960 | 86.3485 | 2624 | 62 | 2624 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | * | map_l250_m2_e1 | homalt | 98.6994 | 97.7189 | 99.6997 | 86.4012 | 2656 | 62 | 2656 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | ti | map_l125_m0_e0 | homalt | 99.0916 | 98.3745 | 99.8192 | 66.7668 | 4418 | 73 | 4418 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9300 | 96.4838 | 99.4203 | 88.6662 | 1372 | 50 | 1372 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.8731 | 98.0246 | 99.7364 | 69.1784 | 3027 | 61 | 3027 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.8529 | 82.0562 | 83.6653 | 62.9041 | 1724 | 377 | 1680 | 328 | 287 | 87.5000 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.1850 | 95.5951 | 98.8287 | 37.6825 | 1237 | 57 | 1350 | 16 | 14 | 87.5000 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.4861 | 97.9849 | 98.9924 | 89.4091 | 778 | 16 | 786 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5782 | 86.5532 | 99.5046 | 32.0000 | 1577 | 245 | 1607 | 8 | 7 | 87.5000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.7615 | 97.6623 | 97.8610 | 79.0945 | 376 | 9 | 366 | 8 | 7 | 87.5000 | |