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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15651-15700 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 29.6245 | 17.6158 | 93.0702 | 66.7638 | 2023 | 9461 | 2122 | 158 | 138 | 87.3418 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.1644 | 85.5030 | 99.9515 | 30.1491 | 2023 | 343 | 2061 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8274 | 91.5346 | 92.1220 | 61.6285 | 2022 | 187 | 2023 | 173 | 118 | 68.2081 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.0152 | 93.7848 | 98.3543 | 70.3629 | 2022 | 134 | 2032 | 34 | 5 | 14.7059 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 89.7651 | 91.4894 | 88.1046 | 61.3701 | 2021 | 188 | 2022 | 273 | 186 | 68.1319 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e0 | * | 85.9487 | 92.0310 | 80.6206 | 88.8530 | 2021 | 175 | 2754 | 662 | 269 | 40.6344 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 34.5163 | 33.2073 | 35.9327 | 70.3914 | 2020 | 4063 | 2009 | 3582 | 3513 | 98.0737 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.1158 | 94.4808 | 84.3273 | 67.4932 | 2020 | 118 | 2432 | 452 | 436 | 96.4602 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 59.5457 | 53.6378 | 66.9161 | 58.0784 | 2020 | 1746 | 2146 | 1061 | 754 | 71.0650 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 59.5457 | 53.6378 | 66.9161 | 58.0784 | 2020 | 1746 | 2146 | 1061 | 754 | 71.0650 | |
| cchapple-custom | SNP | * | map_l250_m0_e0 | * | 95.4584 | 94.5667 | 96.3671 | 93.6675 | 2019 | 116 | 2016 | 76 | 21 | 27.6316 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.0660 | 73.1690 | 98.7769 | 51.5065 | 2018 | 740 | 2019 | 25 | 12 | 48.0000 | |
| gduggal-bwafb | INDEL | * | map_l125_m1_e0 | * | 96.9083 | 95.7760 | 98.0676 | 85.9889 | 2018 | 89 | 2030 | 40 | 8 | 20.0000 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.0716 | 49.9257 | 63.9431 | 62.6651 | 2017 | 2023 | 3506 | 1977 | 448 | 22.6606 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.9665 | 94.7838 | 95.1498 | 73.0488 | 2017 | 111 | 2001 | 102 | 87 | 85.2941 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.9804 | 73.1132 | 74.8684 | 46.1375 | 2015 | 741 | 2276 | 764 | 413 | 54.0576 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.5150 | 94.1534 | 90.9326 | 70.9811 | 2013 | 125 | 2106 | 210 | 201 | 95.7143 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4189 | 94.5959 | 94.2426 | 73.7195 | 2013 | 115 | 1997 | 122 | 101 | 82.7869 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 72.3083 | 81.8625 | 64.7512 | 68.9679 | 2013 | 446 | 2017 | 1098 | 1086 | 98.9071 | |
| anovak-vg | INDEL | D6_15 | * | hetalt | 0.0000 | 24.6269 | 0.0000 | 0.0000 | 2013 | 6161 | 0 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.1761 | 91.8265 | 98.7793 | 33.6573 | 2011 | 179 | 2023 | 25 | 22 | 88.0000 | |
| jli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.1373 | 99.3577 | 98.9179 | 69.5704 | 2011 | 13 | 2011 | 22 | 5 | 22.7273 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | * | 93.0771 | 91.5301 | 94.6773 | 88.3364 | 2010 | 186 | 2010 | 113 | 79 | 69.9115 | |
| astatham-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6598 | 95.3963 | 97.9572 | 88.3361 | 2010 | 97 | 2014 | 42 | 9 | 21.4286 | |
| rpoplin-dv42 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.3569 | 99.3083 | 99.4056 | 69.7301 | 2010 | 14 | 2007 | 12 | 5 | 41.6667 | |
| cchapple-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.2140 | 99.2589 | 99.1691 | 72.0797 | 2009 | 15 | 2029 | 17 | 3 | 17.6471 | |
| ckim-gatk | SNP | ti | map_l250_m2_e1 | het | 74.6885 | 60.8669 | 96.6314 | 96.6914 | 2008 | 1291 | 2008 | 70 | 9 | 12.8571 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | homalt | 41.3935 | 26.1017 | 99.9502 | 90.5160 | 2008 | 5685 | 2008 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7613 | 94.2669 | 95.2609 | 72.9999 | 2006 | 122 | 1990 | 99 | 89 | 89.8990 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m1_e0 | * | 97.1910 | 95.2065 | 99.2600 | 81.6893 | 2006 | 101 | 2012 | 15 | 3 | 20.0000 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0857 | 99.0613 | 99.1102 | 68.1518 | 2005 | 19 | 2005 | 18 | 4 | 22.2222 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.1376 | 72.6976 | 99.8506 | 49.3441 | 2005 | 753 | 2005 | 3 | 3 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l125_m1_e0 | * | 91.5570 | 95.1115 | 88.2586 | 89.4208 | 2004 | 103 | 2007 | 267 | 71 | 26.5918 | |
| anovak-vg | INDEL | D6_15 | HG002compoundhet | hetalt | 0.0000 | 24.5859 | 0.0000 | 0.0000 | 2004 | 6147 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 58.2911 | 54.3260 | 62.8805 | 55.6252 | 2003 | 1684 | 2004 | 1183 | 1139 | 96.2806 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e1 | het | 74.6274 | 60.7154 | 96.8101 | 96.8027 | 2003 | 1296 | 2003 | 66 | 8 | 12.1212 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6451 | 94.1259 | 97.2141 | 69.2007 | 2003 | 125 | 1989 | 57 | 51 | 89.4737 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.5177 | 91.4612 | 99.9507 | 31.0075 | 2003 | 187 | 2026 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.8720 | 57.3310 | 83.1622 | 50.3568 | 2002 | 1490 | 1215 | 246 | 238 | 96.7480 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.0420 | 91.4155 | 98.9681 | 33.4097 | 2002 | 188 | 2014 | 21 | 20 | 95.2381 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 46.8191 | 40.0480 | 56.3456 | 64.3182 | 2002 | 2997 | 1989 | 1541 | 1431 | 92.8618 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.7667 | 98.9130 | 98.6207 | 68.3258 | 2002 | 22 | 2002 | 28 | 5 | 17.8571 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6977 | 98.9130 | 94.5794 | 80.5719 | 2002 | 22 | 2024 | 116 | 6 | 5.1724 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9859 | 98.8636 | 99.1085 | 68.8570 | 2001 | 23 | 2001 | 18 | 6 | 33.3333 | |
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.9370 | 98.8636 | 99.0104 | 68.9077 | 2001 | 23 | 2001 | 20 | 7 | 35.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4797 | 98.7648 | 86.9467 | 79.4810 | 1999 | 25 | 1925 | 289 | 9 | 3.1142 | |
| anovak-vg | INDEL | I6_15 | HG002compoundhet | * | 31.2822 | 22.7666 | 49.9744 | 31.5356 | 1998 | 6778 | 1954 | 1956 | 1488 | 76.0736 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | het | 42.7242 | 27.1911 | 99.6507 | 95.4527 | 1998 | 5350 | 1997 | 7 | 1 | 14.2857 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | * | 95.4155 | 93.2338 | 97.7017 | 49.8529 | 1998 | 145 | 1998 | 47 | 42 | 89.3617 | |