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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74601-74650 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 237 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 83.9832 | 79.7263 | 88.7204 | 58.7246 | 932 | 237 | 936 | 119 | 92 | 77.3109 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4006 | 99.1437 | 99.6587 | 62.2119 | 27441 | 237 | 27449 | 94 | 60 | 63.8298 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.0150 | 95.3702 | 96.6686 | 70.3632 | 4882 | 237 | 4875 | 168 | 149 | 88.6905 | |
| jpowers-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 84.3192 | 79.7263 | 89.4737 | 58.7771 | 932 | 237 | 935 | 110 | 93 | 84.5455 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 19.8805 | 11.8959 | 60.4651 | 91.9021 | 32 | 237 | 26 | 17 | 11 | 64.7059 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | homalt | 84.7204 | 80.4778 | 89.4353 | 51.1131 | 977 | 237 | 982 | 116 | 103 | 88.7931 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 237 | 0 | 0 | 0 | |||
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.0694 | 89.1185 | 97.3869 | 71.5714 | 1941 | 237 | 1938 | 52 | 24 | 46.1538 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | homalt | 62.5786 | 45.6422 | 99.5000 | 87.4451 | 199 | 237 | 199 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7733 | 97.4942 | 98.0540 | 45.3637 | 9221 | 237 | 9221 | 183 | 179 | 97.8142 | |
| egarrison-hhga | SNP | ti | map_l125_m2_e1 | het | 99.2602 | 98.7583 | 99.7671 | 71.8965 | 18850 | 237 | 18850 | 44 | 16 | 36.3636 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9387 | 96.0088 | 99.9477 | 63.4628 | 5701 | 237 | 5737 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1407 | 99.3309 | 96.9788 | 67.1842 | 35182 | 237 | 35277 | 1099 | 205 | 18.6533 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 80.2108 | 82.2072 | 78.3091 | 58.4509 | 1095 | 237 | 1130 | 313 | 202 | 64.5367 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | het | 98.9259 | 98.8361 | 99.0157 | 75.7529 | 20126 | 237 | 20120 | 200 | 117 | 58.5000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.6406 | 93.7451 | 99.7207 | 30.0781 | 3567 | 238 | 3570 | 10 | 10 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_siren | * | 99.5468 | 99.4818 | 99.6119 | 56.8797 | 45692 | 238 | 45686 | 178 | 89 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.4151 | 97.5003 | 99.3472 | 47.2567 | 9283 | 238 | 9283 | 61 | 57 | 93.4426 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.2881 | 95.5213 | 99.1216 | 64.1698 | 5076 | 238 | 5078 | 45 | 35 | 77.7778 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | homalt | 62.4606 | 45.4128 | 100.0000 | 95.4774 | 198 | 238 | 198 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 89.2216 | 80.9904 | 99.3151 | 34.7798 | 1014 | 238 | 1015 | 7 | 7 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.6658 | 97.6616 | 97.6701 | 52.7872 | 9940 | 238 | 9935 | 237 | 215 | 90.7173 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1711 | 98.8017 | 99.5433 | 59.8357 | 19624 | 238 | 19617 | 90 | 58 | 64.4444 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | * | 99.5191 | 99.2725 | 99.7668 | 57.5505 | 32477 | 238 | 32518 | 76 | 59 | 77.6316 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.1165 | 95.7477 | 98.5251 | 68.8562 | 5359 | 238 | 5344 | 80 | 71 | 88.7500 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 52.6861 | 86.5079 | 37.8773 | 88.9660 | 1526 | 238 | 1506 | 2470 | 92 | 3.7247 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| gduggal-snapplat | INDEL | * | segdup | homalt | 82.9294 | 75.2083 | 92.4171 | 94.6528 | 722 | 238 | 780 | 64 | 13 | 20.3125 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 59.4331 | 51.2295 | 70.7650 | 59.7360 | 250 | 238 | 259 | 107 | 80 | 74.7664 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 74.1130 | 68.8073 | 80.3053 | 92.8974 | 525 | 238 | 526 | 129 | 61 | 47.2868 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.1923 | 94.8440 | 99.6599 | 28.7215 | 4378 | 238 | 4395 | 15 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.9811 | 96.5062 | 99.5018 | 33.8856 | 6574 | 238 | 6591 | 33 | 32 | 96.9697 | |
| egarrison-hhga | SNP | ti | map_l100_m0_e0 | * | 99.3678 | 98.9068 | 99.8331 | 66.9886 | 21533 | 238 | 21534 | 36 | 20 | 55.5556 | |
| ckim-isaac | INDEL | D6_15 | map_siren | * | 68.4305 | 53.2417 | 95.7447 | 78.2743 | 271 | 238 | 270 | 12 | 10 | 83.3333 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.9280 | 67.6190 | 86.5649 | 44.3027 | 497 | 238 | 567 | 88 | 88 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.6625 | 90.2806 | 95.1736 | 68.0131 | 2220 | 239 | 2879 | 146 | 107 | 73.2877 | |
| gduggal-bwafb | SNP | * | HG002compoundhet | * | 97.9194 | 99.0744 | 96.7911 | 45.9764 | 25583 | 239 | 25699 | 852 | 222 | 26.0563 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.6868 | 98.6611 | 72.6589 | 66.9839 | 17612 | 239 | 17869 | 6724 | 214 | 3.1826 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.6568 | 97.6518 | 97.6619 | 52.8575 | 9939 | 239 | 9941 | 238 | 209 | 87.8151 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0444 | 86.0070 | 98.9933 | 33.2437 | 1469 | 239 | 1475 | 15 | 15 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | het | 98.5293 | 97.6179 | 99.4579 | 45.4535 | 9794 | 239 | 9540 | 52 | 14 | 26.9231 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m2_e0 | het | 96.1263 | 92.6552 | 99.8676 | 76.8996 | 3015 | 239 | 3018 | 4 | 1 | 25.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | * | 96.1681 | 95.0125 | 97.3521 | 56.1640 | 4553 | 239 | 4559 | 124 | 74 | 59.6774 | |
| mlin-fermikit | SNP | tv | segdup | * | 97.8523 | 97.1988 | 98.5147 | 87.3016 | 8293 | 239 | 8291 | 125 | 50 | 40.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m1_e0 | * | 86.3838 | 78.0331 | 96.7359 | 91.0029 | 849 | 239 | 978 | 33 | 27 | 81.8182 | |
| raldana-dualsentieon | SNP | * | map_l125_m0_e0 | * | 98.7848 | 98.7671 | 98.8026 | 73.3692 | 19146 | 239 | 19143 | 232 | 9 | 3.8793 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3774 | 93.8671 | 99.0257 | 55.4228 | 3658 | 239 | 3659 | 36 | 29 | 80.5556 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4487 | 86.0070 | 99.9334 | 30.1720 | 1469 | 239 | 1501 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8185 | 95.8304 | 99.8909 | 57.5027 | 5493 | 239 | 5494 | 6 | 4 | 66.6667 | |