PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7901-7950 / 86044 show all | |||||||||||||||
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | * | 95.5153 | 95.0355 | 96.0000 | 91.5044 | 4824 | 252 | 4824 | 201 | 59 | 29.3532 | |
| gduggal-bwaplat | INDEL | D6_15 | * | het | 87.6003 | 79.2874 | 97.8603 | 73.1960 | 9191 | 2401 | 9193 | 201 | 85 | 42.2886 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.5396 | 78.3026 | 82.9082 | 65.7841 | 978 | 271 | 975 | 201 | 201 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_l125_m0_e0 | * | 99.0106 | 99.6082 | 98.4201 | 77.7397 | 12712 | 50 | 12521 | 201 | 11 | 5.4726 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.5396 | 78.3026 | 82.9082 | 65.7841 | 978 | 271 | 975 | 201 | 201 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 76.0628 | 78.1719 | 74.0645 | 72.1724 | 573 | 160 | 574 | 201 | 147 | 73.1343 | |
| ciseli-custom | SNP | tv | map_l150_m0_e0 | homalt | 82.2034 | 80.3464 | 84.1483 | 77.4538 | 1067 | 261 | 1067 | 201 | 160 | 79.6020 | |
| ciseli-custom | SNP | tv | map_l250_m0_e0 | * | 63.1004 | 58.1699 | 68.9441 | 95.6122 | 445 | 320 | 444 | 200 | 40 | 20.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.3866 | 96.7594 | 96.0167 | 76.6953 | 4837 | 162 | 4821 | 200 | 138 | 69.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.3866 | 96.7594 | 96.0167 | 76.6953 | 4837 | 162 | 4821 | 200 | 138 | 69.0000 | |
| ckim-vqsr | INDEL | D6_15 | * | het | 98.8252 | 99.3703 | 98.2861 | 64.1967 | 11519 | 73 | 11469 | 200 | 170 | 85.0000 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | het | 77.5773 | 64.0246 | 98.4082 | 91.2212 | 12367 | 6949 | 12364 | 200 | 1 | 0.5000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.5379 | 98.1817 | 98.8967 | 47.5296 | 17927 | 332 | 17928 | 200 | 196 | 98.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 62.4468 | 81.4917 | 50.6173 | 72.8005 | 295 | 67 | 205 | 200 | 199 | 99.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.1134 | 93.7764 | 88.5975 | 54.4652 | 1552 | 103 | 1554 | 200 | 192 | 96.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.0130 | 91.8782 | 84.4600 | 56.4024 | 1086 | 96 | 1087 | 200 | 133 | 66.5000 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | het | 98.9259 | 98.8361 | 99.0157 | 75.7529 | 20126 | 237 | 20120 | 200 | 117 | 58.5000 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.1761 | 97.7083 | 87.2368 | 73.1862 | 1407 | 33 | 1367 | 200 | 4 | 2.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.8503 | 89.1304 | 82.8031 | 86.0652 | 984 | 120 | 963 | 200 | 61 | 30.5000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 76.5373 | 63.7864 | 95.6597 | 61.8480 | 4407 | 2502 | 4408 | 200 | 55 | 27.5000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 53.6324 | 61.8056 | 47.3684 | 65.3285 | 178 | 110 | 180 | 200 | 197 | 98.5000 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | * | 95.5047 | 95.0280 | 95.9863 | 91.4473 | 4759 | 249 | 4759 | 199 | 57 | 28.6432 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7006 | 97.8372 | 99.5793 | 71.1392 | 47227 | 1044 | 47105 | 199 | 54 | 27.1357 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7589 | 99.8685 | 97.6736 | 55.3106 | 8355 | 11 | 8355 | 199 | 195 | 97.9899 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4647 | 97.8852 | 89.4261 | 56.5157 | 1620 | 35 | 1683 | 199 | 186 | 93.4673 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | * | 99.1904 | 99.3389 | 99.0424 | 77.0978 | 20586 | 137 | 20582 | 199 | 37 | 18.5930 | |
| ciseli-custom | INDEL | * | map_l125_m0_e0 | * | 65.7143 | 59.9773 | 72.6648 | 92.6716 | 529 | 353 | 529 | 199 | 111 | 55.7789 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.3105 | 97.4328 | 99.2041 | 31.5728 | 23910 | 630 | 24805 | 199 | 188 | 94.4724 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.7128 | 97.1052 | 98.3282 | 43.4107 | 3757 | 112 | 11704 | 199 | 182 | 91.4573 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3026 | 99.5107 | 97.1234 | 41.8851 | 6712 | 33 | 6719 | 199 | 180 | 90.4523 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 73.8152 | 89.0909 | 63.0112 | 55.9378 | 343 | 42 | 339 | 199 | 180 | 90.4523 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 37.7753 | 27.5229 | 60.2000 | 50.3476 | 120 | 316 | 301 | 199 | 199 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l100_m0_e0 | het | 97.9160 | 98.5600 | 97.2803 | 74.2359 | 7118 | 104 | 7118 | 199 | 34 | 17.0854 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 87.8664 | 96.8421 | 80.4134 | 80.5662 | 828 | 27 | 817 | 199 | 3 | 1.5075 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7127 | 54.1731 | 83.4992 | 45.7734 | 1058 | 895 | 1007 | 199 | 131 | 65.8291 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 19.2946 | 18.8525 | 19.7581 | 78.5095 | 92 | 396 | 49 | 199 | 5 | 2.5126 | |
| jli-custom | INDEL | * | HG002complexvar | * | 99.2454 | 98.7574 | 99.7382 | 56.8994 | 75982 | 956 | 75827 | 199 | 151 | 75.8794 | |
| jlack-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 19.5122 | 100.0000 | 10.8108 | 46.5060 | 24 | 0 | 24 | 198 | 197 | 99.4949 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4121 | 97.9243 | 98.9048 | 46.8296 | 17880 | 379 | 17881 | 198 | 194 | 97.9798 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.4573 | 73.9961 | 93.1034 | 68.3567 | 2635 | 926 | 2673 | 198 | 164 | 82.8283 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.3869 | 97.8750 | 98.9043 | 46.8420 | 17871 | 388 | 17872 | 198 | 194 | 97.9798 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e0 | het | 98.9235 | 98.8328 | 99.0144 | 75.6918 | 19898 | 235 | 19892 | 198 | 117 | 59.0909 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e1 | het | 94.1266 | 94.2407 | 94.0127 | 92.2458 | 3109 | 190 | 3109 | 198 | 56 | 28.2828 | |
| bgallagher-sentieon | SNP | ti | map_l100_m0_e0 | * | 99.2132 | 99.3340 | 99.0926 | 69.0197 | 21626 | 145 | 21623 | 198 | 35 | 17.6768 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1776 | 97.0330 | 99.3494 | 70.2755 | 30219 | 924 | 30236 | 198 | 22 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1776 | 97.0330 | 99.3494 | 70.2755 | 30219 | 924 | 30236 | 198 | 22 | 11.1111 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 88.7830 | 97.7024 | 81.3559 | 76.1187 | 893 | 21 | 864 | 198 | 3 | 1.5152 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 34.0000 | 87.9130 | 0 | 0 | 102 | 198 | 39 | 19.6970 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 74.7226 | 73.9078 | 75.5556 | 71.1230 | 609 | 215 | 612 | 198 | 191 | 96.4646 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.2150 | 96.6216 | 68.5714 | 72.6918 | 429 | 15 | 432 | 198 | 191 | 96.4646 | |