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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78901-78950 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | I6_15 | * | het | 98.9793 | 98.7242 | 99.2358 | 59.2368 | 9905 | 128 | 9869 | 76 | 54 | 71.0526 | |
| gduggal-snapplat | SNP | ti | map_l125_m1_e0 | homalt | 94.5380 | 89.7148 | 99.9092 | 66.4158 | 9909 | 1136 | 9898 | 9 | 9 | 100.0000 | |
| ciseli-custom | SNP | * | map_l150_m2_e0 | homalt | 86.5638 | 84.7166 | 88.4932 | 73.1740 | 9911 | 1788 | 9890 | 1286 | 1036 | 80.5599 | |
| gduggal-snapfb | SNP | tv | map_l125_m1_e0 | het | 96.2891 | 97.8866 | 94.7429 | 72.1296 | 9912 | 214 | 9912 | 550 | 205 | 37.2727 | |
| bgallagher-sentieon | INDEL | I6_15 | * | het | 98.9304 | 98.7940 | 99.0672 | 58.9052 | 9912 | 121 | 9877 | 93 | 60 | 64.5161 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.6409 | 98.1777 | 97.1099 | 61.1163 | 9913 | 184 | 10114 | 301 | 207 | 68.7708 | |
| ckim-gatk | INDEL | I6_15 | * | het | 98.9455 | 98.8239 | 99.0674 | 60.2345 | 9915 | 118 | 9879 | 93 | 52 | 55.9140 | |
| qzeng-custom | SNP | ti | map_l100_m0_e0 | het | 81.5587 | 70.9290 | 95.9360 | 86.8580 | 9918 | 4065 | 9891 | 419 | 349 | 83.2936 | |
| ndellapenna-hhga | SNP | tv | map_l125_m1_e0 | het | 98.8001 | 97.9854 | 99.6285 | 68.0340 | 9922 | 204 | 9922 | 37 | 16 | 43.2432 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.1010 | 95.3685 | 92.8667 | 39.9701 | 9925 | 482 | 9699 | 745 | 638 | 85.6376 | |
| dgrover-gatk | INDEL | I6_15 | * | het | 99.0704 | 98.9435 | 99.1977 | 59.7099 | 9927 | 106 | 9891 | 80 | 53 | 66.2500 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e1 | het | 85.3846 | 76.2889 | 96.9428 | 90.1640 | 9929 | 3086 | 9925 | 313 | 33 | 10.5431 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.6568 | 97.6518 | 97.6619 | 52.8575 | 9939 | 239 | 9941 | 238 | 209 | 87.8151 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.6658 | 97.6616 | 97.6701 | 52.7872 | 9940 | 238 | 9935 | 237 | 215 | 90.7173 | |
| gduggal-snapvard | INDEL | D6_15 | * | het | 75.6496 | 85.7660 | 67.6679 | 49.6050 | 9942 | 1650 | 14418 | 6889 | 5530 | 80.2729 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 84.8407 | 79.4106 | 91.0680 | 42.1071 | 9943 | 2578 | 19902 | 1952 | 731 | 37.4488 | |
| gduggal-bwavard | INDEL | D1_5 | HG002complexvar | homalt | 96.6460 | 93.8290 | 99.6373 | 42.9597 | 9944 | 654 | 9340 | 34 | 22 | 64.7059 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | homalt | 88.6940 | 87.5770 | 89.8399 | 67.8832 | 9947 | 1411 | 9930 | 1123 | 909 | 80.9439 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1839 | 94.9785 | 99.4942 | 28.3420 | 9949 | 526 | 10032 | 51 | 50 | 98.0392 | |
| gduggal-snapplat | SNP | tv | map_l100_m0_e0 | * | 92.3781 | 89.7690 | 95.1434 | 82.0623 | 9950 | 1134 | 9952 | 508 | 276 | 54.3307 | |
| ckim-gatk | SNP | ti | map_l150_m2_e1 | het | 85.5750 | 76.4656 | 97.1484 | 89.9190 | 9952 | 3063 | 9948 | 292 | 33 | 11.3014 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.7847 | 96.0993 | 93.5056 | 43.8048 | 9953 | 404 | 9949 | 691 | 301 | 43.5601 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4355 | 95.0263 | 99.9701 | 33.2469 | 9954 | 521 | 10036 | 3 | 2 | 66.6667 | |
| gduggal-bwavard | SNP | tv | map_l125_m1_e0 | het | 93.0274 | 98.3804 | 88.2269 | 82.2633 | 9962 | 164 | 9937 | 1326 | 63 | 4.7511 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.5455 | 96.2248 | 94.8757 | 43.8826 | 9966 | 391 | 9961 | 538 | 202 | 37.5465 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.9528 | 97.9466 | 99.9799 | 52.0162 | 9969 | 209 | 9970 | 2 | 1 | 50.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 77.9999 | 89.7911 | 68.9460 | 55.2115 | 9974 | 1134 | 10002 | 4505 | 4444 | 98.6459 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.7221 | 89.8362 | 97.9593 | 52.4760 | 9979 | 1129 | 12193 | 254 | 153 | 60.2362 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.5124 | 79.7221 | 69.9419 | 60.7095 | 9982 | 2539 | 10713 | 4604 | 2731 | 59.3180 | |
| asubramanian-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4224 | 98.8809 | 99.9700 | 61.6808 | 9984 | 113 | 9996 | 3 | 3 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.1471 | 72.5516 | 97.3666 | 45.5005 | 9986 | 3778 | 9983 | 270 | 264 | 97.7778 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4277 | 98.8814 | 99.9800 | 49.5688 | 9989 | 113 | 9998 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l125_m1_e0 | het | 99.1809 | 98.6569 | 99.7105 | 68.8561 | 9990 | 136 | 9990 | 29 | 12 | 41.3793 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7777 | 96.0123 | 99.6093 | 42.4195 | 9992 | 415 | 9942 | 39 | 16 | 41.0256 | |
| 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 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 95.4081 | 0.0000 | 0.0000 | 9994 | 481 | 0 | 0 | 0 | ||
| gduggal-bwafb | SNP | tv | map_l125_m1_e0 | het | 98.1591 | 98.7359 | 97.5891 | 74.7511 | 9998 | 128 | 9998 | 247 | 44 | 17.8138 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1030 | 98.2511 | 99.9699 | 50.6031 | 10000 | 178 | 9949 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5025 | 99.0393 | 99.9700 | 61.7944 | 10000 | 97 | 10000 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6612 | 95.4654 | 99.9603 | 33.6622 | 10000 | 475 | 10082 | 4 | 3 | 75.0000 | |
| jli-custom | SNP | tv | map_l125_m1_e0 | het | 98.9659 | 98.7656 | 99.1670 | 68.7560 | 10001 | 125 | 10000 | 84 | 21 | 25.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4632 | 95.4749 | 99.5360 | 33.1882 | 10001 | 474 | 10083 | 47 | 46 | 97.8723 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.3849 | 98.2708 | 96.5148 | 54.3311 | 10002 | 176 | 9831 | 355 | 280 | 78.8732 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.6431 | 96.1084 | 99.2277 | 42.1750 | 10002 | 405 | 15032 | 117 | 72 | 61.5385 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | het | 97.6861 | 98.8149 | 96.5827 | 77.3870 | 10006 | 120 | 10005 | 354 | 25 | 7.0622 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6959 | 95.5227 | 99.9703 | 33.3773 | 10006 | 469 | 10089 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.3021 | 99.0596 | 93.6939 | 64.5457 | 10007 | 95 | 10029 | 675 | 110 | 16.2963 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9228 | 99.1388 | 98.7077 | 45.0241 | 10015 | 87 | 9777 | 128 | 46 | 35.9375 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.2928 | 99.2077 | 91.6751 | 67.8866 | 10017 | 80 | 9999 | 908 | 277 | 30.5066 | |
| ciseli-custom | SNP | * | map_l150_m2_e1 | homalt | 86.5594 | 84.7045 | 88.4973 | 73.1841 | 10018 | 1809 | 9994 | 1299 | 1047 | 80.6005 | |