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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26351-26400 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 50.0000 | 50.0000 | 50.0000 | 74.6032 | 8 | 8 | 8 | 8 | 8 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 53.1073 | 38.5246 | 85.4545 | 67.2619 | 47 | 75 | 47 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.1748 | 98.8355 | 99.5163 | 68.9098 | 1358 | 16 | 1646 | 8 | 6 | 75.0000 | |
| cchapple-custom | INDEL | I1_5 | map_l150_m0_e0 | * | 94.8440 | 94.3182 | 95.3757 | 91.3802 | 166 | 10 | 165 | 8 | 2 | 25.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.6508 | 100.0000 | 88.0597 | 74.5247 | 59 | 0 | 59 | 8 | 7 | 87.5000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.0504 | 96.7449 | 99.3916 | 61.8066 | 1278 | 43 | 1307 | 8 | 8 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | map_siren | het | 96.0059 | 95.8042 | 96.2085 | 84.5308 | 137 | 6 | 203 | 8 | 2 | 25.0000 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8364 | 99.7525 | 99.9204 | 39.9139 | 10077 | 25 | 10036 | 8 | 6 | 75.0000 | |
| cchapple-custom | SNP | tv | HG002complexvar | homalt | 99.8120 | 99.6331 | 99.9915 | 20.8601 | 94762 | 349 | 94159 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 52.6316 | 50.0000 | 55.5556 | 99.5007 | 10 | 10 | 10 | 8 | 4 | 50.0000 | |
| ciseli-custom | INDEL | * | tech_badpromoters | homalt | 65.5738 | 60.6061 | 71.4286 | 50.0000 | 20 | 13 | 20 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 33.3333 | 96.8750 | 0 | 0 | 4 | 8 | 3 | 37.5000 | |
| 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 | INDEL | I6_15 | map_l100_m0_e0 | het | 50.0000 | 41.1765 | 63.6364 | 87.5706 | 7 | 10 | 14 | 8 | 1 | 12.5000 | |
| anovak-vg | INDEL | I6_15 | map_l125_m0_e0 | * | 63.1579 | 60.0000 | 66.6667 | 88.4615 | 9 | 6 | 16 | 8 | 3 | 37.5000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m1_e0 | het | 54.4218 | 53.3333 | 55.5556 | 90.8163 | 8 | 7 | 10 | 8 | 1 | 12.5000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e0 | het | 54.4218 | 53.3333 | 55.5556 | 91.7431 | 8 | 7 | 10 | 8 | 1 | 12.5000 | |
| anovak-vg | INDEL | I6_15 | map_l150_m2_e1 | het | 52.6316 | 50.0000 | 55.5556 | 91.9283 | 8 | 8 | 10 | 8 | 1 | 12.5000 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 77.5000 | 75.6098 | 79.4872 | 90.6475 | 31 | 10 | 31 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | * | map_l250_m0_e0 | homalt | 81.4814 | 69.6343 | 98.1859 | 93.8468 | 438 | 191 | 433 | 8 | 6 | 75.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 73.8636 | 71.4286 | 76.4706 | 89.6024 | 25 | 10 | 26 | 8 | 5 | 62.5000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 55.7276 | 58.8235 | 52.9412 | 95.5959 | 10 | 7 | 9 | 8 | 5 | 62.5000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7930 | 99.8068 | 99.7792 | 75.7754 | 3616 | 7 | 3616 | 8 | 3 | 37.5000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.5860 | 95.8996 | 99.3328 | 33.9394 | 1146 | 49 | 1191 | 8 | 8 | 100.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1132 | 96.6216 | 99.6516 | 87.6280 | 2288 | 80 | 2288 | 8 | 8 | 100.0000 | |
| 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 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0231 | 98.3067 | 99.7501 | 65.5325 | 3193 | 55 | 3193 | 8 | 6 | 75.0000 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.2670 | 98.6631 | 99.8783 | 77.1278 | 6568 | 89 | 6568 | 8 | 5 | 62.5000 | |
| 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_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.3720 | 99.3348 | 99.4092 | 74.3463 | 1344 | 9 | 1346 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e0 | homalt | 96.2820 | 93.4179 | 99.3272 | 85.6349 | 1178 | 83 | 1181 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | * | map_l100_m2_e1 | homalt | 96.3001 | 93.4426 | 99.3377 | 85.6787 | 1197 | 84 | 1200 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | C16_PLUS | HG002compoundhet | homalt | 0.0000 | 0.0000 | 60.0000 | 0 | 0 | 0 | 8 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 84.9057 | 0 | 0 | 0 | 8 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 0.0000 | 0.0000 | 91.9192 | 0 | 0 | 0 | 8 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | het | 84.9211 | 86.9565 | 82.9787 | 96.4952 | 40 | 6 | 39 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_siren | het | 90.9390 | 92.3077 | 89.6104 | 96.4236 | 72 | 6 | 69 | 8 | 1 | 12.5000 | |
| 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 | D1_5 | segdup | het | 98.6259 | 98.4104 | 98.8423 | 95.7351 | 681 | 11 | 683 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 91.9355 | 90.4762 | 93.4426 | 91.7344 | 114 | 12 | 114 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e0 | het | 91.8288 | 90.0763 | 93.6508 | 91.9796 | 118 | 13 | 118 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l100_m2_e1 | het | 92.0981 | 90.3704 | 93.8931 | 91.8176 | 122 | 13 | 123 | 8 | 2 | 25.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 80.8415 | 91.4894 | 72.4138 | 94.0574 | 43 | 4 | 21 | 8 | 8 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.4646 | 91.0550 | 98.1395 | 85.6905 | 397 | 39 | 422 | 8 | 6 | 75.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.5476 | 92.4127 | 98.9026 | 69.5997 | 609 | 50 | 721 | 8 | 8 | 100.0000 | |