PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46001-46050 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m1_e0 | het | 94.8682 | 95.0000 | 94.7368 | 87.3333 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e0 | het | 94.8682 | 95.0000 | 94.7368 | 89.2045 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | map_l125_m2_e1 | het | 94.8682 | 95.0000 | 94.7368 | 89.3258 | 19 | 1 | 18 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.4359 | 95.0000 | 100.0000 | 51.2821 | 19 | 1 | 19 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 78.1089 | 82.6087 | 74.0741 | 77.3109 | 19 | 4 | 20 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 81.3704 | 86.3636 | 76.9231 | 74.5098 | 19 | 3 | 20 | 6 | 6 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 84.4444 | 73.0769 | 100.0000 | 84.7328 | 19 | 7 | 20 | 0 | 0 | ||
| astatham-gatk | INDEL | I16_PLUS | segdup | homalt | 97.4359 | 100.0000 | 95.0000 | 94.6809 | 19 | 0 | 19 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.2862 | 19 | 0 | 19 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.4028 | 19 | 0 | 19 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | HG002compoundhet | homalt | 34.1743 | 61.2903 | 23.6923 | 35.6011 | 19 | 12 | 231 | 744 | 513 | 68.9516 | |
| anovak-vg | INDEL | I6_15 | map_l100_m0_e0 | * | 61.7886 | 57.5758 | 66.6667 | 85.3933 | 19 | 14 | 26 | 13 | 6 | 46.1538 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 31.0023 | 26.7606 | 36.8421 | 38.3117 | 19 | 52 | 35 | 60 | 46 | 76.6667 | |
| anovak-vg | INDEL | I16_PLUS | HG002complexvar | hetalt | 0.0000 | 5.6716 | 0.0000 | 0.0000 | 19 | 316 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 12.8639 | 7.7236 | 38.4615 | 59.1928 | 19 | 227 | 35 | 56 | 6 | 10.7143 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 72.2892 | 19 | 0 | 23 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | segdup | homalt | 97.4359 | 100.0000 | 95.0000 | 94.6237 | 19 | 0 | 19 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.5490 | 19 | 0 | 19 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 92.6923 | 19 | 0 | 19 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l150_m0_e0 | het | 97.4359 | 95.0000 | 100.0000 | 96.2451 | 19 | 1 | 19 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l250_m2_e0 | * | 92.6829 | 86.3636 | 100.0000 | 97.4392 | 19 | 3 | 20 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | map_l250_m2_e1 | * | 92.6829 | 86.3636 | 100.0000 | 97.5093 | 19 | 3 | 20 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.4359 | 95.0000 | 100.0000 | 64.9123 | 19 | 1 | 20 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I16_PLUS | map_siren | homalt | 92.6829 | 90.4762 | 95.0000 | 95.0249 | 19 | 2 | 19 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.9873 | 19 | 0 | 19 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 94.1176 | 19 | 0 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | * | map_l150_m1_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 75.9494 | 19 | 1 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | * | map_l150_m2_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 79.5699 | 19 | 1 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | * | map_l150_m2_e1 | hetalt | 97.4359 | 95.0000 | 100.0000 | 79.5699 | 19 | 1 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l150_m1_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 75.9494 | 19 | 1 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l150_m2_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 79.5699 | 19 | 1 | 19 | 0 | 0 | ||
| astatham-gatk | SNP | tv | map_l150_m2_e1 | hetalt | 97.4359 | 95.0000 | 100.0000 | 79.5699 | 19 | 1 | 19 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | map_l150_m1_e0 | hetalt | 95.0000 | 90.4762 | 100.0000 | 95.2607 | 19 | 2 | 20 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | hetalt | 95.0000 | 90.4762 | 100.0000 | 95.8763 | 19 | 2 | 20 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.4359 | 95.0000 | 100.0000 | 65.4545 | 19 | 1 | 19 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 90.4762 | 82.6087 | 100.0000 | 72.5000 | 19 | 4 | 22 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | segdup | homalt | 97.4359 | 100.0000 | 95.0000 | 94.7917 | 19 | 0 | 19 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.2143 | 19 | 0 | 19 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.3333 | 19 | 0 | 19 | 0 | 0 | ||
| ckim-dragen | SNP | tv | map_l150_m1_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 84.6774 | 19 | 1 | 19 | 0 | 0 | ||
| ckim-dragen | SNP | tv | map_l150_m2_e0 | hetalt | 97.4359 | 95.0000 | 100.0000 | 86.7133 | 19 | 1 | 19 | 0 | 0 | ||
| ckim-dragen | SNP | tv | map_l150_m2_e1 | hetalt | 97.4359 | 95.0000 | 100.0000 | 86.7133 | 19 | 1 | 19 | 0 | 0 | ||
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 95.0000 | 95.0000 | 95.0000 | 99.3932 | 19 | 1 | 19 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | map_l150_m2_e1 | hetalt | 90.4762 | 82.6087 | 100.0000 | 95.8515 | 19 | 4 | 19 | 0 | 0 | ||
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.2039 | 70.3704 | 88.0000 | 96.8983 | 19 | 8 | 22 | 3 | 0 | 0.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.1667 | 73.0769 | 86.3636 | 95.4825 | 19 | 7 | 19 | 3 | 0 | 0.0000 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m1_e0 | het | 54.4803 | 41.3043 | 80.0000 | 88.4793 | 19 | 27 | 20 | 5 | 3 | 60.0000 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 28.3794 | 25.3333 | 32.2581 | 67.7083 | 19 | 56 | 20 | 42 | 24 | 57.1429 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 2.3960 | 0.0000 | 0.0000 | 19 | 774 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 28.8000 | 20.0000 | 51.4286 | 92.7835 | 19 | 76 | 18 | 17 | 3 | 17.6471 | |