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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
60151-60200 / 86044 show all | |||||||||||||||
| cchapple-custom | SNP | tv | map_l250_m2_e0 | * | 95.6656 | 95.8015 | 95.5301 | 90.2861 | 2761 | 121 | 2757 | 129 | 24 | 18.6047 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6661 | 99.0033 | 92.5466 | 51.1010 | 596 | 6 | 596 | 48 | 47 | 97.9167 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6666 | 99.3783 | 92.2222 | 67.1222 | 2238 | 14 | 2241 | 189 | 11 | 5.8201 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.6668 | 95.6114 | 95.7223 | 68.1753 | 90304 | 4145 | 148271 | 6626 | 3965 | 59.8400 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.6668 | 91.6936 | 100.0000 | 25.6384 | 4261 | 386 | 4310 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6672 | 92.3077 | 99.2806 | 52.6405 | 264 | 22 | 276 | 2 | 2 | 100.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.6677 | 96.0493 | 95.2892 | 79.6573 | 6394 | 263 | 6392 | 316 | 202 | 63.9241 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6683 | 98.8300 | 92.7026 | 77.7557 | 3210 | 38 | 3214 | 253 | 21 | 8.3004 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m1_e0 | het | 95.6711 | 96.4433 | 94.9111 | 81.1539 | 1166 | 43 | 1175 | 63 | 7 | 11.1111 | |
| cchapple-custom | SNP | * | map_l150_m1_e0 | het | 95.6722 | 96.8731 | 94.5008 | 80.5876 | 18712 | 604 | 18731 | 1090 | 239 | 21.9266 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.6728 | 91.8003 | 99.8864 | 30.0913 | 3493 | 312 | 3518 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.6730 | 92.4844 | 99.0893 | 41.0583 | 3261 | 265 | 3808 | 35 | 33 | 94.2857 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.6730 | 92.4844 | 99.0893 | 41.0583 | 3261 | 265 | 3808 | 35 | 33 | 94.2857 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.6731 | 91.7051 | 100.0000 | 35.4740 | 199 | 18 | 211 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.6731 | 91.7051 | 100.0000 | 35.4740 | 199 | 18 | 211 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.6731 | 91.7051 | 100.0000 | 37.4251 | 199 | 18 | 209 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | map_siren | homalt | 95.6739 | 94.8845 | 96.4765 | 70.7843 | 1150 | 62 | 1150 | 42 | 15 | 35.7143 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | het | 95.6747 | 95.2060 | 96.1480 | 92.4743 | 1271 | 64 | 1273 | 51 | 5 | 9.8039 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.6750 | 95.3003 | 96.0526 | 80.5028 | 365 | 18 | 365 | 15 | 12 | 80.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.6760 | 92.6622 | 98.8925 | 36.2012 | 1528 | 121 | 1518 | 17 | 17 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m1_e0 | het | 95.6776 | 99.2570 | 92.3473 | 78.4943 | 45022 | 337 | 45011 | 3730 | 265 | 7.1046 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.6799 | 93.0581 | 98.4538 | 59.4166 | 12802 | 955 | 19039 | 299 | 108 | 36.1204 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.6799 | 93.0581 | 98.4538 | 59.4166 | 12802 | 955 | 19039 | 299 | 108 | 36.1204 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6807 | 99.1251 | 92.4676 | 62.1593 | 6685 | 59 | 6715 | 547 | 8 | 1.4625 | |
| cchapple-custom | SNP | tv | map_l250_m2_e1 | * | 95.6819 | 95.8162 | 95.5479 | 90.3656 | 2794 | 122 | 2790 | 130 | 24 | 18.4615 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6822 | 97.8799 | 93.5811 | 68.4771 | 277 | 6 | 277 | 19 | 19 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l125_m2_e0 | het | 95.6835 | 95.6806 | 95.6863 | 92.2445 | 731 | 33 | 732 | 33 | 3 | 9.0909 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6861 | 95.4198 | 95.9538 | 64.2562 | 500 | 24 | 498 | 21 | 15 | 71.4286 | |
| ckim-gatk | INDEL | D6_15 | map_l125_m2_e1 | * | 95.6863 | 95.3125 | 96.0630 | 93.0752 | 122 | 6 | 122 | 5 | 1 | 20.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l250_m2_e1 | het | 95.6863 | 100.0000 | 91.7293 | 95.8044 | 122 | 0 | 122 | 11 | 1 | 9.0909 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | * | 95.6870 | 97.6989 | 93.7563 | 78.5243 | 44284 | 1043 | 43712 | 2911 | 180 | 6.1834 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.6879 | 92.0949 | 99.5726 | 86.9710 | 1165 | 100 | 1165 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | * | 95.6890 | 96.4725 | 94.9180 | 82.9590 | 2899 | 106 | 2895 | 155 | 39 | 25.1613 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l250_m1_e0 | het | 95.6897 | 100.0000 | 91.7355 | 95.6159 | 111 | 0 | 111 | 10 | 1 | 10.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.6898 | 94.0299 | 97.4093 | 80.1031 | 189 | 12 | 188 | 5 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | * | * | hetalt | 95.6899 | 92.3010 | 99.3372 | 57.2847 | 23294 | 1943 | 23381 | 156 | 151 | 96.7949 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.6905 | 94.4340 | 96.9809 | 66.6013 | 11554 | 681 | 11564 | 360 | 339 | 94.1667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l125_m1_e0 | homalt | 95.6909 | 92.2636 | 99.3827 | 86.3464 | 322 | 27 | 322 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.5292 | 744 | 8 | 744 | 59 | 59 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | hetalt | 95.6914 | 91.7821 | 99.9485 | 44.7982 | 1921 | 172 | 1941 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.6922 | 99.9080 | 91.8178 | 68.6059 | 2172 | 2 | 2076 | 185 | 3 | 1.6216 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.4446 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.3412 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.6924 | 96.0989 | 95.2894 | 42.1888 | 6454 | 262 | 6453 | 319 | 300 | 94.0439 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6930 | 94.2857 | 97.1429 | 83.7209 | 33 | 2 | 34 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6938 | 97.0874 | 94.3396 | 90.0094 | 100 | 3 | 100 | 6 | 1 | 16.6667 | |
| dgrover-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 95.6938 | 94.3396 | 97.0874 | 96.3358 | 100 | 6 | 100 | 3 | 2 | 66.6667 | |
| ckim-vqsr | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6938 | 97.0874 | 94.3396 | 91.8147 | 100 | 3 | 100 | 6 | 1 | 16.6667 | |