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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66301-66350 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8588 | 99.8119 | 99.9058 | 80.0075 | 1061 | 2 | 1061 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | HG002compoundhet | hetalt | 66.4170 | 50.0717 | 98.6059 | 45.0179 | 1048 | 1045 | 1061 | 15 | 14 | 93.3333 | |
| mlin-fermikit | INDEL | D1_5 | segdup | * | 97.1654 | 96.3735 | 97.9705 | 92.4302 | 1063 | 40 | 1062 | 22 | 19 | 86.3636 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m1_e0 | * | 97.8802 | 97.6103 | 98.1516 | 85.0201 | 1062 | 26 | 1062 | 20 | 8 | 40.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.4026 | 92.5078 | 65.0735 | 61.5548 | 889 | 72 | 1062 | 570 | 543 | 95.2632 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4848 | 99.7183 | 99.2523 | 67.2382 | 1062 | 3 | 1062 | 8 | 8 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | map_l125_m1_e0 | * | 97.7461 | 97.7022 | 97.7901 | 86.2288 | 1063 | 25 | 1062 | 24 | 2 | 8.3333 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.0239 | 89.8477 | 98.6072 | 53.8165 | 1062 | 120 | 1062 | 15 | 14 | 93.3333 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8120 | 99.9059 | 99.7183 | 81.2335 | 1062 | 1 | 1062 | 3 | 1 | 33.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8590 | 99.9059 | 99.8120 | 81.1281 | 1062 | 1 | 1062 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8120 | 99.9059 | 99.7183 | 81.3713 | 1062 | 1 | 1062 | 3 | 1 | 33.3333 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.5183 | 78.0351 | 99.6251 | 29.7101 | 977 | 275 | 1063 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6034 | 94.8872 | 94.3212 | 81.3996 | 1262 | 68 | 1063 | 64 | 51 | 79.6875 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.5183 | 78.0351 | 99.6251 | 29.7101 | 977 | 275 | 1063 | 4 | 4 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7963 | 98.1618 | 97.4335 | 57.5156 | 1068 | 20 | 1063 | 28 | 24 | 85.7143 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5318 | 99.8122 | 99.2530 | 67.9437 | 1063 | 2 | 1063 | 8 | 8 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.4680 | 77.9553 | 99.6251 | 31.2943 | 976 | 276 | 1063 | 4 | 4 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.5785 | 99.8122 | 99.3458 | 67.3382 | 1063 | 2 | 1063 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3458 | 99.8122 | 98.8837 | 68.5948 | 1063 | 2 | 1063 | 12 | 12 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3464 | 100.0000 | 98.7013 | 68.4149 | 1065 | 0 | 1064 | 14 | 14 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.1150 | 99.9061 | 98.3364 | 68.3163 | 1064 | 1 | 1064 | 18 | 18 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m0_e0 | * | 87.0777 | 95.0174 | 80.3625 | 87.2790 | 820 | 43 | 1064 | 260 | 71 | 27.3077 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3928 | 99.9061 | 98.8848 | 68.5288 | 1064 | 1 | 1064 | 12 | 12 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3464 | 99.9061 | 98.7929 | 68.3700 | 1064 | 1 | 1064 | 13 | 13 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3928 | 99.9061 | 98.8848 | 68.4550 | 1064 | 1 | 1064 | 12 | 12 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.0384 | 95.2632 | 92.8447 | 81.0891 | 1267 | 63 | 1064 | 82 | 76 | 92.6829 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.1075 | 97.6103 | 98.6098 | 84.5171 | 1062 | 26 | 1064 | 15 | 4 | 26.6667 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4398 | 100.0000 | 98.8858 | 68.4996 | 1065 | 0 | 1065 | 12 | 12 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | * | hetalt | 66.4183 | 50.0953 | 98.5199 | 58.7247 | 1051 | 1047 | 1065 | 16 | 15 | 93.7500 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.9409 | 75.3478 | 100.0000 | 40.3027 | 975 | 319 | 1065 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.4862 | 100.0000 | 98.9777 | 68.5196 | 1065 | 0 | 1065 | 11 | 11 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.2067 | 39.4727 | 40.9685 | 65.1113 | 1048 | 1607 | 1066 | 1536 | 1023 | 66.6016 | |
| gduggal-snapplat | SNP | ti | map_l250_m0_e0 | * | 85.2021 | 77.7372 | 94.2529 | 96.3701 | 1065 | 305 | 1066 | 65 | 29 | 44.6154 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 66.9692 | 50.8453 | 98.0681 | 41.1478 | 1203 | 1163 | 1066 | 21 | 14 | 66.6667 | |
| gduggal-bwavard | INDEL | C1_5 | HG002complexvar | het | 82.2319 | 85.7143 | 79.0215 | 80.8462 | 6 | 1 | 1066 | 283 | 105 | 37.1025 | |
| ciseli-custom | SNP | tv | map_l150_m0_e0 | homalt | 82.2034 | 80.3464 | 84.1483 | 77.4538 | 1067 | 261 | 1067 | 201 | 160 | 79.6020 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 87.7194 | 78.3546 | 99.6265 | 31.7400 | 981 | 271 | 1067 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 87.0684 | 79.1574 | 96.7362 | 66.6465 | 1071 | 282 | 1067 | 36 | 34 | 94.4444 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 87.0329 | 79.1574 | 96.6486 | 67.1233 | 1071 | 282 | 1067 | 37 | 32 | 86.4865 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 64.3273 | 59.5954 | 69.8756 | 29.2072 | 1031 | 699 | 1067 | 460 | 370 | 80.4348 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8022 | 98.1618 | 97.4453 | 67.6027 | 1068 | 20 | 1068 | 28 | 24 | 85.7143 | |
| ckim-vqsr | SNP | tv | map_l250_m1_e0 | * | 57.0360 | 40.3476 | 97.2678 | 97.1909 | 1068 | 1579 | 1068 | 30 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | * | homalt | 79.0390 | 68.3536 | 93.6842 | 50.1966 | 1067 | 494 | 1068 | 72 | 53 | 73.6111 | |
| gduggal-bwavard | INDEL | C1_5 | * | het | 77.2653 | 88.8889 | 68.3301 | 92.9553 | 8 | 1 | 1068 | 495 | 105 | 21.2121 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.9883 | 95.6391 | 94.3463 | 80.9074 | 1272 | 58 | 1068 | 64 | 58 | 90.6250 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m2_e1 | * | 85.6170 | 80.5532 | 91.3601 | 93.0292 | 932 | 225 | 1068 | 101 | 21 | 20.7921 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8899 | 98.2537 | 99.5345 | 61.1292 | 1069 | 19 | 1069 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 71.3980 | 62.1268 | 83.9216 | 50.4662 | 1852 | 1129 | 1070 | 205 | 197 | 96.0976 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 55.2770 | 84.4907 | 41.0749 | 86.9620 | 1095 | 201 | 1070 | 1535 | 61 | 3.9739 | |
| eyeh-varpipe | INDEL | * | map_l150_m1_e0 | het | 96.7203 | 96.6082 | 96.8326 | 87.6550 | 826 | 29 | 1070 | 35 | 18 | 51.4286 | |