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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12851-12900 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 12.5828 | 9.4527 | 18.8119 | 88.2558 | 19 | 182 | 19 | 82 | 46 | 56.0976 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 75.9688 | 61.9247 | 98.2517 | 67.2018 | 296 | 182 | 281 | 5 | 5 | 100.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 66.2963 | 49.5845 | 100.0000 | 63.8554 | 179 | 182 | 180 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 9.8039 | 5.2083 | 83.3333 | 89.0909 | 10 | 182 | 10 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 59.7902 | 69.7674 | 52.3096 | 34.3980 | 420 | 182 | 419 | 382 | 382 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.2145 | 93.1450 | 95.3088 | 77.7623 | 2473 | 182 | 2438 | 120 | 91 | 75.8333 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 85.2592 | 76.6067 | 96.1151 | 93.3295 | 596 | 182 | 668 | 27 | 23 | 85.1852 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.2465 | 93.1191 | 97.4734 | 81.1308 | 2463 | 182 | 2469 | 64 | 5 | 7.8125 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e1 | homalt | 68.2068 | 63.0081 | 74.3405 | 84.7866 | 310 | 182 | 310 | 107 | 94 | 87.8505 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 92.4964 | 96.7963 | 88.5622 | 52.1231 | 5499 | 182 | 5482 | 708 | 693 | 97.8814 | |
| ckim-isaac | INDEL | I1_5 | map_l150_m1_e0 | * | 77.6978 | 64.0316 | 98.7805 | 90.5503 | 324 | 182 | 324 | 4 | 1 | 25.0000 | |
| egarrison-hhga | SNP | ti | map_l150_m2_e1 | het | 99.1616 | 98.6016 | 99.7280 | 76.3347 | 12833 | 182 | 12833 | 35 | 13 | 37.1429 | |
| egarrison-hhga | SNP | tv | HG002complexvar | homalt | 99.8748 | 99.8086 | 99.9410 | 22.7459 | 94929 | 182 | 94938 | 56 | 46 | 82.1429 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.2389 | 79.1284 | 99.7203 | 27.1152 | 690 | 182 | 713 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 66.2963 | 49.5845 | 100.0000 | 63.9279 | 179 | 182 | 180 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 9.8039 | 5.2083 | 83.3333 | 88.7850 | 10 | 182 | 10 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | * | map_l250_m2_e1 | het | 97.7120 | 96.5426 | 98.9101 | 87.1957 | 5082 | 182 | 5082 | 56 | 24 | 42.8571 | |
| jlack-gatk | SNP | tv | map_l125_m1_e0 | * | 95.0729 | 98.8636 | 91.5621 | 79.9369 | 15834 | 182 | 15832 | 1459 | 89 | 6.1001 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.5241 | 97.2660 | 99.8150 | 78.5959 | 6475 | 182 | 6476 | 12 | 1 | 8.3333 | |
| asubramanian-gatk | INDEL | * | map_l100_m0_e0 | * | 91.6436 | 88.3557 | 95.1857 | 96.6934 | 1381 | 182 | 1384 | 70 | 8 | 11.4286 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0609 | 95.3297 | 98.8561 | 56.5082 | 3715 | 182 | 3716 | 43 | 36 | 83.7209 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0423 | 85.9024 | 99.1274 | 31.9073 | 1109 | 182 | 1136 | 10 | 8 | 80.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 19.5313 | 12.1359 | 50.0000 | 45.6954 | 25 | 181 | 41 | 41 | 38 | 92.6829 | |
| anovak-vg | SNP | ti | map_l250_m0_e0 | het | 69.1155 | 80.6210 | 60.4839 | 96.0595 | 753 | 181 | 750 | 490 | 108 | 22.0408 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | het | 99.0076 | 99.3826 | 98.6355 | 75.8378 | 29137 | 181 | 29131 | 403 | 55 | 13.6476 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | het | 99.0167 | 99.3893 | 98.6469 | 75.8815 | 29459 | 181 | 29453 | 404 | 55 | 13.6139 | |
| mlin-fermikit | INDEL | * | map_l150_m2_e0 | homalt | 67.7201 | 62.3701 | 74.0741 | 84.8315 | 300 | 181 | 300 | 105 | 92 | 87.6190 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | * | 86.8238 | 79.0267 | 96.3280 | 91.0593 | 682 | 181 | 787 | 30 | 23 | 76.6667 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 85.0239 | 76.2779 | 96.0352 | 93.3503 | 582 | 181 | 654 | 27 | 23 | 85.1852 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m2_e1 | homalt | 74.9478 | 66.4815 | 85.8852 | 77.4663 | 359 | 181 | 359 | 59 | 57 | 96.6102 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e1 | het | 59.5186 | 42.9022 | 97.1429 | 85.6704 | 136 | 181 | 136 | 4 | 2 | 50.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.3589 | 97.3161 | 99.4242 | 37.2504 | 6563 | 181 | 6562 | 38 | 5 | 13.1579 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 25.0503 | 16.2037 | 55.1724 | 73.1481 | 35 | 181 | 32 | 26 | 8 | 30.7692 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 77.6372 | 81.0471 | 74.5027 | 77.6881 | 774 | 181 | 824 | 282 | 193 | 68.4397 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 52.0117 | 48.8701 | 55.5851 | 61.8274 | 173 | 181 | 209 | 167 | 115 | 68.8623 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.8883 | 93.2614 | 96.5730 | 77.2592 | 2505 | 181 | 2508 | 89 | 6 | 6.7416 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 93.1937 | 87.3160 | 99.9198 | 34.2646 | 1246 | 181 | 1246 | 1 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 19.2500 | 18.4685 | 20.1005 | 60.4374 | 41 | 181 | 40 | 159 | 151 | 94.9686 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 75.4333 | 60.8225 | 99.2832 | 50.1786 | 281 | 181 | 277 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.8092 | 82.7619 | 93.5122 | 40.8038 | 869 | 181 | 3416 | 237 | 233 | 98.3122 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 65.3479 | 50.1377 | 93.8053 | 47.9263 | 182 | 181 | 106 | 7 | 7 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l125_m1_e0 | * | 98.6420 | 98.8699 | 98.4152 | 72.8937 | 15835 | 181 | 15835 | 255 | 50 | 19.6078 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 18.1984 | 12.1359 | 36.3636 | 91.4286 | 25 | 181 | 24 | 42 | 24 | 57.1429 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.5475 | 95.7291 | 99.4363 | 77.3949 | 4057 | 181 | 4057 | 23 | 3 | 13.0435 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | het | 78.4773 | 78.8551 | 78.1030 | 69.3467 | 675 | 181 | 667 | 187 | 185 | 98.9305 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 77.4032 | 63.1365 | 100.0000 | 29.1489 | 310 | 181 | 333 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | het | 81.8478 | 78.8551 | 85.0765 | 66.7091 | 675 | 181 | 667 | 117 | 113 | 96.5812 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e0 | homalt | 79.0960 | 65.9134 | 98.8701 | 77.8750 | 350 | 181 | 350 | 4 | 2 | 50.0000 | |
| egarrison-hhga | SNP | ti | map_l150_m2_e0 | het | 99.1606 | 98.5948 | 99.7330 | 76.2545 | 12700 | 181 | 12700 | 34 | 13 | 38.2353 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 88.7284 | 98.2608 | 80.8820 | 41.3226 | 10226 | 181 | 10564 | 2497 | 2416 | 96.7561 | |