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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36451-36500 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.3286 | 85.3061 | 87.3759 | 57.5045 | 627 | 108 | 616 | 89 | 86 | 96.6292 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m1_e0 | * | 86.3271 | 94.1520 | 79.7030 | 96.1626 | 161 | 10 | 161 | 41 | 4 | 9.7561 | |
| ciseli-custom | SNP | ti | map_l100_m2_e1 | * | 86.3257 | 83.3424 | 89.5306 | 71.0284 | 41242 | 8243 | 41176 | 4815 | 1336 | 27.7466 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 86.3234 | 76.6990 | 98.7097 | 39.9225 | 158 | 48 | 153 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 86.3189 | 96.5217 | 78.0669 | 73.5497 | 222 | 8 | 210 | 59 | 5 | 8.4746 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 86.3158 | 83.6735 | 89.1304 | 77.9904 | 41 | 8 | 41 | 5 | 5 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.3098 | 85.7592 | 86.8676 | 76.1917 | 819 | 136 | 807 | 122 | 105 | 86.0656 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.3078 | 82.7751 | 90.1554 | 73.0070 | 173 | 36 | 174 | 19 | 12 | 63.1579 | |
| ciseli-custom | SNP | * | map_l150_m1_e0 | homalt | 86.3052 | 84.4052 | 88.2927 | 70.7708 | 9515 | 1758 | 9495 | 1259 | 1014 | 80.5401 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.3046 | 77.4770 | 97.4025 | 63.5175 | 8586 | 2496 | 8587 | 229 | 186 | 81.2227 | |
| astatham-gatk | SNP | * | map_l150_m2_e0 | het | 86.3036 | 76.1635 | 99.5583 | 83.9104 | 15334 | 4799 | 15328 | 68 | 27 | 39.7059 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e0 | * | 86.3034 | 95.4344 | 78.7671 | 91.5243 | 7525 | 360 | 7449 | 2008 | 101 | 5.0299 | |
| ckim-isaac | INDEL | I6_15 | * | * | 86.2978 | 78.9268 | 95.1875 | 41.9911 | 19592 | 5231 | 19601 | 991 | 727 | 73.3602 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002complexvar | * | 86.2963 | 77.2538 | 97.7362 | 64.0519 | 3702 | 1090 | 3713 | 86 | 50 | 58.1395 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 86.2959 | 82.2171 | 90.8006 | 44.5699 | 3204 | 693 | 7531 | 763 | 673 | 88.2045 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002compoundhet | * | 86.2940 | 82.1745 | 90.8483 | 50.5089 | 1761 | 382 | 1767 | 178 | 133 | 74.7191 | |
| gduggal-snapplat | INDEL | I1_5 | map_l150_m2_e1 | homalt | 86.2888 | 79.9020 | 93.7853 | 93.0913 | 163 | 41 | 166 | 11 | 0 | 0.0000 | |
| astatham-gatk | SNP | * | map_l150_m2_e1 | het | 86.2859 | 76.1332 | 99.5631 | 83.9622 | 15503 | 4860 | 15497 | 68 | 27 | 39.7059 | |
| anovak-vg | INDEL | D1_5 | map_siren | het | 86.2774 | 89.9868 | 82.8617 | 80.2332 | 2049 | 228 | 2079 | 430 | 142 | 33.0233 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.2768 | 77.0823 | 97.9619 | 72.5253 | 1490 | 443 | 1490 | 31 | 29 | 93.5484 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.2766 | 99.2958 | 76.2757 | 84.3842 | 846 | 6 | 852 | 265 | 167 | 63.0189 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002compoundhet | hetalt | 86.2756 | 76.4004 | 99.0826 | 35.1190 | 1473 | 455 | 216 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | map_l150_m2_e1 | homalt | 86.2745 | 75.8621 | 100.0000 | 86.4516 | 22 | 7 | 21 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | map_l150_m2_e1 | homalt | 86.2745 | 75.8621 | 100.0000 | 86.2500 | 22 | 7 | 22 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I16_PLUS | segdup | het | 86.2745 | 91.6667 | 81.4815 | 94.7674 | 22 | 2 | 22 | 5 | 5 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.2745 | 100.0000 | 75.8621 | 83.7079 | 22 | 0 | 22 | 7 | 7 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 86.2745 | 77.1930 | 97.7778 | 99.5198 | 44 | 13 | 44 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | map_l100_m0_e0 | * | 86.2745 | 78.5714 | 95.6522 | 93.1751 | 22 | 6 | 22 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 86.2745 | 100.0000 | 75.8621 | 86.5116 | 22 | 0 | 22 | 7 | 7 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | * | 86.2745 | 88.0000 | 84.6154 | 95.7861 | 22 | 3 | 22 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l150_m2_e0 | * | 86.2745 | 88.0000 | 84.6154 | 96.2963 | 22 | 3 | 22 | 4 | 0 | 0.0000 | |
| jli-custom | INDEL | I16_PLUS | map_l100_m2_e0 | * | 86.2745 | 84.6154 | 88.0000 | 94.3311 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| jli-custom | INDEL | I16_PLUS | map_l100_m2_e1 | * | 86.2745 | 84.6154 | 88.0000 | 94.3694 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 86.2745 | 91.6667 | 81.4815 | 79.3893 | 22 | 2 | 22 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 86.2745 | 91.6667 | 81.4815 | 78.2258 | 22 | 2 | 22 | 5 | 5 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m0_e0 | * | 86.2745 | 91.6667 | 81.4815 | 98.6855 | 22 | 2 | 22 | 5 | 1 | 20.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l100_m2_e0 | * | 86.2745 | 84.6154 | 88.0000 | 96.2631 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | * | 86.2745 | 84.6154 | 88.0000 | 96.2798 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e1 | homalt | 86.2745 | 75.8621 | 100.0000 | 85.9873 | 22 | 7 | 22 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | map_l250_m0_e0 | * | 86.2745 | 91.6667 | 81.4815 | 98.6855 | 22 | 2 | 22 | 5 | 1 | 20.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 86.2677 | 93.1373 | 80.3419 | 74.6753 | 95 | 7 | 94 | 23 | 22 | 95.6522 | |
| dgrover-gatk | INDEL | I6_15 | HG002compoundhet | het | 86.2668 | 98.0769 | 76.9953 | 84.5091 | 204 | 4 | 164 | 49 | 48 | 97.9592 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m2_e0 | het | 86.2638 | 76.9904 | 98.0769 | 84.9825 | 967 | 289 | 969 | 19 | 7 | 36.8421 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | * | 86.2627 | 83.2663 | 89.4829 | 71.0430 | 40768 | 8193 | 40704 | 4784 | 1327 | 27.7383 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.2598 | 90.9752 | 82.0090 | 83.7372 | 13256 | 1315 | 13087 | 2871 | 130 | 4.5280 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.2598 | 90.9752 | 82.0090 | 83.7372 | 13256 | 1315 | 13087 | 2871 | 130 | 4.5280 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.2568 | 87.6742 | 84.8845 | 71.5339 | 1195 | 168 | 1213 | 216 | 204 | 94.4444 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 86.2553 | 98.3091 | 76.8345 | 75.3229 | 32674 | 562 | 32511 | 9802 | 9224 | 94.1032 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | map_l100_m2_e0 | het | 86.2547 | 79.1667 | 94.7368 | 87.3754 | 38 | 10 | 36 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 86.2527 | 79.1632 | 94.7368 | 71.2121 | 946 | 249 | 18 | 1 | 0 | 0.0000 | |