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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32401-32450 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.1554 | 89.6907 | 90.6250 | 93.3194 | 87 | 10 | 87 | 9 | 2 | 22.2222 | |
| raldana-dualsentieon | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.2308 | 89.6907 | 88.7755 | 92.8467 | 87 | 10 | 87 | 11 | 4 | 36.3636 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 64.6644 | 48.0447 | 98.8636 | 26.6667 | 86 | 93 | 87 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4286 | 100.0000 | 98.8636 | 79.0974 | 87 | 0 | 87 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8506 | 98.8506 | 98.8506 | 81.8750 | 86 | 1 | 86 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 44.8718 | 85 | 0 | 86 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | segdup | het | 96.6292 | 93.4783 | 100.0000 | 93.7591 | 86 | 6 | 86 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 45.9119 | 85 | 0 | 86 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.2857 | 96.6292 | 100.0000 | 67.9104 | 86 | 3 | 86 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 53.4225 | 56.2232 | 50.8876 | 80.9255 | 131 | 102 | 86 | 83 | 33 | 39.7590 | |
| gduggal-bwaplat | INDEL | D6_15 | map_l100_m1_e0 | het | 80.0000 | 68.2540 | 96.6292 | 95.5366 | 86 | 40 | 86 | 3 | 1 | 33.3333 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m1_e0 | * | 86.6896 | 77.1930 | 98.8506 | 81.4894 | 88 | 26 | 86 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | C6_15 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 86.0000 | 87.6847 | 0 | 0 | 86 | 14 | 13 | 92.8571 | |
| eyeh-varpipe | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 65.6489 | 85.9893 | 0 | 0 | 86 | 45 | 39 | 86.6667 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 48.5484 | 60.8696 | 40.3756 | 32.1656 | 14 | 9 | 86 | 127 | 125 | 98.4252 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 14.8482 | 8.0420 | 96.6292 | 50.2793 | 23 | 263 | 86 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 50.5670 | 63.6364 | 41.9512 | 31.6667 | 14 | 8 | 86 | 119 | 118 | 99.1597 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | hetalt | 84.1295 | 75.8065 | 94.5055 | 88.4664 | 94 | 30 | 86 | 5 | 2 | 40.0000 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e0 | hetalt | 83.7547 | 75.2000 | 94.5055 | 89.4798 | 94 | 31 | 86 | 5 | 2 | 40.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 36.0294 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 83.7918 | 78.7037 | 89.5833 | 87.3850 | 85 | 23 | 86 | 10 | 6 | 60.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 65.2356 | 95.9184 | 49.4253 | 67.9558 | 47 | 2 | 86 | 88 | 8 | 9.0909 | |
| qzeng-custom | INDEL | I6_15 | map_siren | homalt | 77.8370 | 87.7778 | 69.9187 | 73.1441 | 79 | 11 | 86 | 37 | 1 | 2.7027 | |
| ndellapenna-hhga | INDEL | I6_15 | map_siren | homalt | 96.6292 | 95.5556 | 97.7273 | 81.5514 | 86 | 4 | 86 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 91.1215 | 83.6910 | 100.0000 | 74.7801 | 195 | 38 | 86 | 0 | 0 | ||
| qzeng-custom | INDEL | * | map_l250_m1_e0 | homalt | 71.3120 | 56.8807 | 95.5556 | 96.3444 | 62 | 47 | 86 | 4 | 1 | 25.0000 | |
| astatham-gatk | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.5839 | 85 | 0 | 86 | 0 | 0 | ||
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9310 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.5839 | 85 | 0 | 86 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 59.8131 | 85 | 0 | 86 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | map_l125_m0_e0 | het | 48.1438 | 39.5833 | 61.4286 | 93.9707 | 76 | 116 | 86 | 54 | 7 | 12.9630 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 95.1220 | 90.6977 | 100.0000 | 77.4869 | 78 | 8 | 86 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.8148 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | C1_5 | map_siren | het | 0.0000 | 0.0000 | 37.0690 | 95.2998 | 0 | 0 | 86 | 146 | 16 | 10.9589 | |
| gduggal-snapvard | INDEL | D16_PLUS | HG002complexvar | het | 12.2286 | 7.0461 | 46.2366 | 72.6872 | 78 | 1029 | 86 | 100 | 53 | 53.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 42.7574 | 27.8075 | 92.4731 | 71.5596 | 104 | 270 | 86 | 7 | 2 | 28.5714 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 54.0864 | 41.3442 | 78.1818 | 30.8176 | 203 | 288 | 86 | 24 | 6 | 25.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 28.8305 | 21.2560 | 44.7917 | 78.0069 | 88 | 326 | 86 | 106 | 102 | 96.2264 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 11.7728 | 84.3137 | 6.3282 | 78.4662 | 86 | 16 | 86 | 1273 | 9 | 0.7070 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 15.1142 | 85.1485 | 8.2932 | 83.7435 | 86 | 15 | 86 | 951 | 14 | 1.4721 | |
| eyeh-varpipe | INDEL | * | map_l250_m0_e0 | het | 95.3582 | 96.2264 | 94.5055 | 96.7254 | 51 | 2 | 86 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e0 | hetalt | 82.9138 | 72.0000 | 97.7273 | 89.6104 | 90 | 35 | 86 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 68.1120 | 71.9512 | 64.6617 | 69.6347 | 118 | 46 | 86 | 47 | 43 | 91.4894 | |
| dgrover-gatk | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.9136 | 85 | 0 | 86 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 62.8205 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 84.6065 | 77.2727 | 93.4783 | 86.4507 | 85 | 25 | 86 | 6 | 4 | 66.6667 | |
| hfeng-pmm3 | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 44.1558 | 85 | 0 | 86 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 43.8710 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 47.2393 | 85 | 0 | 86 | 0 | 0 | ||