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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18701-18750 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6199 | 97.4770 | 99.7898 | 71.4168 | 15184 | 393 | 15192 | 32 | 22 | 68.7500 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002complexvar | het | 95.8589 | 93.7669 | 98.0464 | 66.4344 | 1038 | 69 | 803 | 16 | 11 | 68.7500 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.2899 | 98.0823 | 98.4984 | 72.4641 | 2097 | 41 | 2099 | 32 | 22 | 68.7500 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e1 | homalt | 98.4736 | 98.2045 | 98.7441 | 83.1392 | 1258 | 23 | 1258 | 16 | 11 | 68.7500 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.6821 | 90.4306 | 99.3530 | 87.4575 | 2457 | 260 | 2457 | 16 | 11 | 68.7500 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.2934 | 80.1932 | 91.0864 | 71.0950 | 332 | 82 | 327 | 32 | 22 | 68.7500 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.0978 | 97.8306 | 96.3760 | 82.9898 | 947 | 21 | 851 | 32 | 22 | 68.7500 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.8208 | 99.5074 | 94.2755 | 84.0377 | 606 | 3 | 527 | 32 | 22 | 68.7500 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m1_e0 | * | 59.7750 | 58.6207 | 60.9756 | 96.0271 | 51 | 36 | 50 | 32 | 22 | 68.7500 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m1_e0 | het | 70.0000 | 91.3043 | 56.7568 | 95.0634 | 42 | 4 | 42 | 32 | 22 | 68.7500 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m2_e0 | * | 61.1538 | 60.0000 | 62.3529 | 96.1223 | 54 | 36 | 53 | 32 | 22 | 68.7500 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m2_e0 | het | 70.9677 | 91.6667 | 57.8947 | 95.2970 | 44 | 4 | 44 | 32 | 22 | 68.7500 | |
| hfeng-pmm1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8413 | 98.1645 | 99.5274 | 73.0408 | 47385 | 886 | 47174 | 224 | 154 | 68.7500 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.0301 | 71.4070 | 99.1727 | 30.3565 | 1888 | 756 | 1918 | 16 | 11 | 68.7500 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 67.7966 | 86.9565 | 55.5556 | 81.0526 | 20 | 3 | 20 | 16 | 11 | 68.7500 | |
| rpoplin-dv42 | SNP | ti | map_l125_m1_e0 | * | 99.2894 | 99.0830 | 99.4967 | 68.8733 | 29066 | 269 | 29062 | 147 | 101 | 68.7075 | |
| gduggal-snapplat | SNP | ti | HG002compoundhet | homalt | 95.6482 | 94.5361 | 96.7868 | 36.7388 | 6990 | 404 | 6928 | 230 | 158 | 68.6957 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.5242 | 79.9191 | 89.6923 | 68.2772 | 593 | 149 | 583 | 67 | 46 | 68.6567 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 82.6277 | 88.7597 | 77.2881 | 67.7243 | 229 | 29 | 228 | 67 | 46 | 68.6567 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.3699 | 99.0104 | 93.8665 | 85.7412 | 1801 | 18 | 1561 | 102 | 70 | 68.6275 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.3699 | 99.0104 | 93.8665 | 85.7412 | 1801 | 18 | 1561 | 102 | 70 | 68.6275 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.8422 | 99.9434 | 92.0643 | 68.8076 | 1766 | 1 | 1775 | 153 | 105 | 68.6275 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.3371 | 87.1377 | 83.6094 | 85.7161 | 962 | 142 | 959 | 188 | 129 | 68.6170 | |
| gduggal-bwavard | SNP | ti | HG002complexvar | het | 98.2415 | 97.2329 | 99.2714 | 18.7202 | 306056 | 8710 | 302050 | 2217 | 1521 | 68.6062 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | * | 97.6402 | 96.6756 | 98.6242 | 68.7700 | 6165 | 212 | 6165 | 86 | 59 | 68.6047 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | * | 95.8235 | 95.2655 | 96.3881 | 94.1040 | 1489 | 74 | 2295 | 86 | 59 | 68.6047 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.6123 | 74.0570 | 95.9987 | 49.9006 | 2886 | 1011 | 2903 | 121 | 83 | 68.5950 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 16.5740 | 9.2050 | 83.0918 | 78.3246 | 110 | 1085 | 172 | 35 | 24 | 68.5714 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 32.8464 | 22.5806 | 60.2273 | 99.9609 | 28 | 96 | 53 | 35 | 24 | 68.5714 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m2_e0 | * | 71.5037 | 71.4286 | 71.5789 | 85.3395 | 90 | 36 | 136 | 54 | 37 | 68.5185 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1862 | 98.9111 | 99.4628 | 53.1375 | 9992 | 110 | 9998 | 54 | 37 | 68.5185 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.2222 | 98.4038 | 98.0413 | 45.0797 | 1048 | 17 | 2703 | 54 | 37 | 68.5185 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | het | 97.0125 | 97.6891 | 96.3452 | 79.1579 | 3086 | 73 | 2847 | 108 | 74 | 68.5185 | |
| eyeh-varpipe | INDEL | * | map_l150_m1_e0 | * | 96.5735 | 96.1136 | 97.0378 | 95.4187 | 1286 | 52 | 1769 | 54 | 37 | 68.5185 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0284 | 97.0399 | 97.0169 | 59.6380 | 31045 | 947 | 33661 | 1035 | 709 | 68.5024 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1945 | 93.5761 | 98.9636 | 58.8872 | 25900 | 1778 | 26068 | 273 | 187 | 68.4982 | |
| egarrison-hhga | SNP | ti | * | homalt | 99.9365 | 99.8935 | 99.9794 | 16.8582 | 802183 | 855 | 802203 | 165 | 113 | 68.4848 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 65.7441 | 83.6158 | 54.1667 | 62.4609 | 148 | 29 | 195 | 165 | 113 | 68.4848 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 86.2429 | 82.3474 | 90.5252 | 56.5548 | 877 | 188 | 879 | 92 | 63 | 68.4783 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.2255 | 97.5000 | 96.9526 | 72.5894 | 2925 | 75 | 2927 | 92 | 63 | 68.4783 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m1_e0 | * | 93.6112 | 92.3701 | 94.8860 | 83.6796 | 1707 | 141 | 1707 | 92 | 63 | 68.4783 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 42.4936 | 32.3575 | 61.8768 | 70.3993 | 210 | 439 | 211 | 130 | 89 | 68.4615 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 38.9465 | 31.2500 | 51.6729 | 83.5071 | 150 | 330 | 139 | 130 | 89 | 68.4615 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e1 | * | 59.0339 | 60.9195 | 57.2614 | 87.6774 | 530 | 340 | 552 | 412 | 282 | 68.4466 | |
| 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-snapplat | INDEL | I1_5 | * | hetalt | 55.9163 | 41.4113 | 86.0603 | 83.9805 | 4636 | 6559 | 4655 | 754 | 516 | 68.4350 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.4416 | 99.2346 | 99.6494 | 43.8167 | 3630 | 28 | 5401 | 19 | 13 | 68.4211 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m1_e0 | het | 94.1526 | 93.3076 | 95.0131 | 86.3196 | 725 | 52 | 724 | 38 | 26 | 68.4211 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2132 | 98.0073 | 98.4200 | 74.3056 | 2410 | 49 | 2367 | 38 | 26 | 68.4211 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3929 | 99.1600 | 99.6269 | 75.2923 | 5076 | 43 | 5074 | 19 | 13 | 68.4211 | |