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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78001-78050 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.0211 | 84.5394 | 98.5791 | 36.6641 | 8049 | 1472 | 8048 | 116 | 98 | 84.4828 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.3579 | 96.3517 | 96.3641 | 60.0124 | 8055 | 305 | 8057 | 304 | 143 | 47.0395 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.3579 | 96.3517 | 96.3641 | 60.0124 | 8055 | 305 | 8057 | 304 | 143 | 47.0395 | |
| eyeh-varpipe | INDEL | I6_15 | * | het | 83.0781 | 80.3150 | 86.0381 | 40.9246 | 8058 | 1975 | 8048 | 1306 | 1290 | 98.7749 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6175 | 96.0100 | 99.2797 | 41.3870 | 8061 | 335 | 16539 | 120 | 106 | 88.3333 | |
| gduggal-bwavard | SNP | ti | map_l125_m0_e0 | het | 92.1685 | 97.6038 | 87.3066 | 84.9758 | 8065 | 198 | 8013 | 1165 | 59 | 5.0644 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 81.1651 | 84.7285 | 77.8894 | 53.1421 | 8067 | 1454 | 8067 | 2290 | 2086 | 91.0917 | |
| gduggal-snapvard | INDEL | D1_5 | HG002compoundhet | * | 63.8171 | 65.9528 | 61.8155 | 58.2289 | 8068 | 4165 | 12360 | 7635 | 5847 | 76.5815 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | het | 83.9896 | 84.9027 | 83.0960 | 44.5406 | 8070 | 1435 | 9104 | 1852 | 1542 | 83.2613 | |
| jli-custom | INDEL | I6_15 | HG002compoundhet | hetalt | 97.1767 | 94.5414 | 99.9630 | 28.7734 | 8071 | 466 | 8109 | 3 | 3 | 100.0000 | |
| qzeng-custom | SNP | * | map_l150_m2_e1 | homalt | 80.8266 | 68.2422 | 99.1019 | 73.2731 | 8071 | 3756 | 7945 | 72 | 72 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 79.5976 | 80.1449 | 79.0576 | 60.6684 | 8073 | 2000 | 10755 | 2849 | 1405 | 49.3155 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | * | 91.2208 | 90.4965 | 91.9568 | 50.8884 | 8075 | 848 | 8083 | 707 | 593 | 83.8755 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.8901 | 92.0123 | 95.8462 | 36.5464 | 8075 | 701 | 8076 | 350 | 348 | 99.4286 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.3211 | 96.1768 | 98.4930 | 60.0607 | 8075 | 321 | 8039 | 123 | 117 | 95.1220 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 57.7786 | 84.8230 | 43.8104 | 49.2561 | 8076 | 1445 | 8069 | 10349 | 9583 | 92.5983 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7060 | 96.2006 | 99.2594 | 58.4607 | 8077 | 319 | 8041 | 60 | 42 | 70.0000 | |
| mlin-fermikit | SNP | ti | map_l125_m1_e0 | het | 61.0167 | 44.2242 | 98.3680 | 59.8543 | 8078 | 10188 | 8077 | 134 | 7 | 5.2239 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6432 | 96.0756 | 99.2628 | 61.8299 | 8079 | 330 | 8079 | 60 | 52 | 86.6667 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7838 | 96.2244 | 99.3945 | 58.5102 | 8079 | 317 | 8044 | 49 | 40 | 81.6327 | |
| gduggal-bwafb | INDEL | I6_15 | * | het | 88.0827 | 80.5342 | 97.1926 | 38.4775 | 8080 | 1953 | 13848 | 400 | 379 | 94.7500 | |
| jli-custom | INDEL | I6_15 | * | hetalt | 97.1523 | 94.5503 | 99.9016 | 36.5262 | 8085 | 466 | 8123 | 8 | 8 | 100.0000 | |
| ciseli-custom | SNP | tv | map_l100_m2_e0 | homalt | 89.1677 | 87.8120 | 90.5658 | 64.9670 | 8091 | 1123 | 8083 | 842 | 633 | 75.1781 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7354 | 96.2302 | 99.2883 | 62.1142 | 8092 | 317 | 8092 | 58 | 49 | 84.4828 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 71.3041 | 72.8754 | 69.7991 | 45.2762 | 8095 | 3013 | 10629 | 4599 | 3296 | 71.6678 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.7078 | 96.2897 | 99.1684 | 59.0884 | 8097 | 312 | 8109 | 68 | 56 | 82.3529 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8307 | 96.4864 | 99.2129 | 59.5573 | 8101 | 295 | 8067 | 64 | 55 | 85.9375 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 92.7620 | 87.2242 | 99.0507 | 45.1542 | 8104 | 1187 | 2713 | 26 | 26 | 100.0000 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 65.2473 | 96.5460 | 49.2736 | 54.6440 | 8106 | 290 | 8140 | 8380 | 8238 | 98.3055 | |
| jli-custom | SNP | ti | map_l125_m0_e0 | het | 98.6256 | 98.1363 | 99.1199 | 71.4709 | 8109 | 154 | 8109 | 72 | 25 | 34.7222 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.9782 | 96.4324 | 99.5745 | 60.1289 | 8109 | 300 | 8190 | 35 | 13 | 37.1429 | |
| ckim-vqsr | INDEL | I6_15 | HG002compoundhet | * | 94.2580 | 92.3997 | 96.1926 | 36.2881 | 8109 | 667 | 8110 | 321 | 319 | 99.3769 | |
| ltrigg-rtg2 | INDEL | I6_15 | HG002compoundhet | hetalt | 97.3702 | 95.0217 | 99.8378 | 29.8617 | 8112 | 425 | 8001 | 13 | 12 | 92.3077 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| jmaeng-gatk | SNP | ti | map_l125_m0_e0 | * | 77.0171 | 63.5715 | 97.6758 | 88.7194 | 8113 | 4649 | 8111 | 193 | 22 | 11.3990 | |
| ckim-gatk | INDEL | I6_15 | HG002compoundhet | * | 94.2778 | 92.4567 | 96.1721 | 36.2689 | 8114 | 662 | 8115 | 323 | 321 | 99.3808 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | * | 77.0822 | 63.5950 | 97.8298 | 88.5344 | 8116 | 4646 | 8114 | 180 | 23 | 12.7778 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 48.8008 | 44.4493 | 54.0968 | 38.3719 | 8116 | 10143 | 8068 | 6846 | 6736 | 98.3932 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | het | 85.6436 | 76.9070 | 96.6195 | 86.8249 | 8116 | 2437 | 8117 | 284 | 231 | 81.3380 | |
| ciseli-custom | SNP | tv | map_l150_m2_e0 | * | 76.6548 | 71.4839 | 82.6322 | 82.1021 | 8117 | 3238 | 8112 | 1705 | 399 | 23.4018 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.7864 | 97.0356 | 87.0760 | 55.5089 | 8118 | 248 | 8112 | 1204 | 1184 | 98.3389 | |
| egarrison-hhga | SNP | ti | map_l125_m0_e0 | het | 98.9821 | 98.2694 | 99.7053 | 75.9224 | 8120 | 143 | 8120 | 24 | 10 | 41.6667 | |
| gduggal-bwafb | SNP | ti | map_l125_m0_e0 | het | 98.2879 | 98.3057 | 98.2700 | 78.1213 | 8123 | 140 | 8123 | 143 | 44 | 30.7692 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 69.4365 | 97.1073 | 54.0383 | 40.3757 | 8124 | 242 | 11749 | 9993 | 9948 | 99.5497 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | hetalt | 97.3347 | 95.0298 | 99.7542 | 44.1554 | 8126 | 425 | 8116 | 20 | 19 | 95.0000 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | het | 96.8041 | 98.4267 | 95.2342 | 81.7798 | 8133 | 130 | 8133 | 407 | 98 | 24.0786 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | het | 87.4351 | 80.3377 | 95.9080 | 87.2955 | 8135 | 1991 | 8133 | 347 | 14 | 4.0346 | |
| raldana-dualsentieon | SNP | ti | map_l125_m0_e0 | het | 98.3262 | 98.4751 | 98.1776 | 75.7875 | 8137 | 126 | 8135 | 151 | 1 | 0.6623 | |