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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12151-12200 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5902 | 93.7269 | 99.6340 | 52.3424 | 3810 | 255 | 3811 | 14 | 3 | 21.4286 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.5046 | 93.7269 | 99.4518 | 53.6591 | 3810 | 255 | 3810 | 21 | 4 | 19.0476 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | homalt | 91.7078 | 84.8363 | 99.7904 | 71.0087 | 3810 | 681 | 3809 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7927 | 99.7427 | 99.8427 | 56.7264 | 3877 | 10 | 3809 | 6 | 3 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8132 | 93.8694 | 99.9475 | 22.1609 | 3782 | 247 | 3809 | 2 | 2 | 100.0000 | |
| dgrover-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.4517 | 99.0380 | 99.8689 | 62.1627 | 3809 | 37 | 3809 | 5 | 3 | 60.0000 | |
| 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 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.3224 | 97.0558 | 97.5904 | 32.2861 | 3791 | 115 | 3807 | 94 | 61 | 64.8936 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7868 | 93.8198 | 99.9475 | 22.1700 | 3780 | 249 | 3807 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | tv | map_l100_m0_e0 | homalt | 99.7129 | 99.7140 | 99.7118 | 68.3997 | 3835 | 11 | 3806 | 11 | 3 | 27.2727 | |
| gduggal-bwafb | SNP | tv | map_l100_m0_e0 | homalt | 99.3993 | 98.9600 | 99.8426 | 67.1804 | 3806 | 40 | 3806 | 6 | 4 | 66.6667 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.5798 | 98.0799 | 95.1250 | 45.1378 | 3831 | 75 | 3805 | 195 | 3 | 1.5385 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 81.5998 | 93.5118 | 72.3797 | 87.9363 | 3877 | 269 | 3805 | 1452 | 65 | 4.4766 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 50.1118 | 85.0427 | 35.5215 | 51.6283 | 3781 | 665 | 3804 | 6905 | 6879 | 99.6235 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | het | 81.4607 | 94.3576 | 71.6654 | 76.0047 | 3863 | 231 | 3804 | 1504 | 1483 | 98.6037 | |
| gduggal-snapplat | SNP | ti | map_l250_m1_e0 | * | 88.1520 | 82.9439 | 94.0579 | 93.4361 | 3798 | 781 | 3799 | 240 | 126 | 52.5000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 85.0816 | 98.0660 | 75.1335 | 65.0221 | 3803 | 75 | 3798 | 1257 | 30 | 2.3866 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.7084 | 94.4652 | 99.0608 | 42.7483 | 3789 | 222 | 3797 | 36 | 12 | 33.3333 | |
| astatham-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.2548 | 98.6999 | 99.8159 | 61.6440 | 3796 | 50 | 3796 | 7 | 4 | 57.1429 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | homalt | 99.1768 | 98.6739 | 99.6848 | 64.1086 | 3795 | 51 | 3795 | 12 | 10 | 83.3333 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8066 | 99.2505 | 98.3666 | 68.3281 | 3840 | 29 | 3794 | 63 | 61 | 96.8254 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.3948 | 97.3583 | 97.4313 | 62.8424 | 3796 | 103 | 3793 | 100 | 40 | 40.0000 | |
| gduggal-bwavard | INDEL | * | HG002compoundhet | het | 23.2106 | 89.3014 | 13.3387 | 58.9532 | 3656 | 438 | 3793 | 24643 | 23937 | 97.1351 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6279 | 93.5220 | 99.9473 | 22.3450 | 3768 | 261 | 3793 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3194 | 97.8377 | 94.8474 | 67.7840 | 3846 | 85 | 3792 | 206 | 24 | 11.6505 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 78.2170 | 70.8374 | 87.3129 | 79.9686 | 10921 | 4496 | 3792 | 551 | 400 | 72.5953 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3847 | 99.1729 | 95.6599 | 68.7214 | 3837 | 32 | 3791 | 172 | 166 | 96.5116 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | het | 92.6752 | 98.3879 | 87.5896 | 79.6233 | 4028 | 66 | 3790 | 537 | 528 | 98.3240 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.4468 | 99.1471 | 95.8038 | 68.8013 | 3836 | 33 | 3790 | 166 | 160 | 96.3855 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | het | 93.5069 | 98.4612 | 89.0273 | 79.7555 | 4031 | 63 | 3789 | 467 | 459 | 98.2869 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3336 | 99.1212 | 95.6094 | 68.5201 | 3835 | 34 | 3789 | 174 | 168 | 96.5517 | |
| ckim-gatk | INDEL | * | HG002compoundhet | het | 93.4586 | 98.5589 | 88.8602 | 79.6039 | 4035 | 59 | 3789 | 475 | 465 | 97.8947 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.1583 | 99.0954 | 95.2956 | 68.4624 | 3834 | 35 | 3788 | 187 | 181 | 96.7914 | |
| gduggal-snapfb | SNP | * | map_l150_m0_e0 | homalt | 95.7170 | 92.6388 | 99.0068 | 86.9094 | 3788 | 301 | 3788 | 38 | 12 | 31.5789 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6894 | 93.8694 | 99.6841 | 24.6230 | 3782 | 247 | 3787 | 12 | 12 | 100.0000 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | * | 84.2312 | 79.3934 | 89.6968 | 87.9330 | 2932 | 761 | 3787 | 435 | 68 | 15.6322 | |
| astatham-gatk | INDEL | * | HG002compoundhet | het | 93.2853 | 98.3879 | 88.6859 | 79.4067 | 4028 | 66 | 3786 | 483 | 475 | 98.3437 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3310 | 98.9920 | 95.7248 | 68.7757 | 3830 | 39 | 3784 | 169 | 163 | 96.4497 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 54.8241 | 40.1571 | 86.3699 | 66.0570 | 3731 | 5560 | 3783 | 597 | 508 | 85.0921 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5198 | 93.2738 | 100.0000 | 24.0209 | 3758 | 271 | 3783 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | HG002complexvar | * | 76.1590 | 74.2173 | 78.2051 | 56.8522 | 3935 | 1367 | 3782 | 1054 | 954 | 90.5123 | |
| jlack-gatk | SNP | tv | map_l100_m0_e0 | homalt | 99.0571 | 98.3359 | 99.7889 | 62.7592 | 3782 | 64 | 3782 | 8 | 5 | 62.5000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.5286 | 73.7548 | 88.6726 | 69.8081 | 3687 | 1312 | 3781 | 483 | 366 | 75.7764 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.5286 | 73.7548 | 88.6726 | 69.8081 | 3687 | 1312 | 3781 | 483 | 366 | 75.7764 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | homalt | 96.6127 | 93.9349 | 99.4477 | 77.1281 | 3841 | 248 | 3781 | 21 | 16 | 76.1905 | |
| anovak-vg | INDEL | D16_PLUS | * | * | 64.9199 | 56.1321 | 76.9701 | 52.6377 | 3808 | 2976 | 3780 | 1131 | 815 | 72.0601 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.0131 | 98.1219 | 99.9207 | 56.5287 | 3814 | 73 | 3779 | 3 | 2 | 66.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.4344 | 96.9479 | 97.9258 | 61.8911 | 3780 | 119 | 3777 | 80 | 36 | 45.0000 | |