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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38151-38200 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 68.8650 | 53.4107 | 96.9038 | 66.6154 | 1472 | 1284 | 1471 | 47 | 36 | 76.5957 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | * | 69.5020 | 53.4244 | 99.4224 | 91.0196 | 17208 | 15002 | 17212 | 100 | 30 | 30.0000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 64.7210 | 53.4249 | 82.0746 | 70.9149 | 8322 | 7255 | 8292 | 1811 | 1705 | 94.1469 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.6311 | 53.4267 | 99.9443 | 78.9757 | 3586 | 3126 | 3586 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m1_e0 | * | 68.9230 | 53.4340 | 97.0573 | 96.2285 | 3859 | 3363 | 3859 | 117 | 9 | 7.6923 | |
| ciseli-custom | SNP | tv | map_l250_m1_e0 | het | 59.5668 | 53.4415 | 67.2779 | 93.2143 | 955 | 832 | 954 | 464 | 21 | 4.5259 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | het | 69.6130 | 53.4647 | 99.7375 | 84.2187 | 1520 | 1323 | 1520 | 4 | 1 | 25.0000 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | homalt | 69.6665 | 53.4731 | 99.9279 | 52.0793 | 4157 | 3617 | 4157 | 3 | 3 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002compoundhet | * | 63.8133 | 53.4814 | 79.0931 | 40.7537 | 1252 | 1089 | 1343 | 355 | 284 | 80.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 57.2317 | 53.4884 | 61.5385 | 74.3421 | 23 | 20 | 24 | 15 | 8 | 53.3333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 65.0593 | 53.4989 | 82.9932 | 36.5011 | 237 | 206 | 244 | 50 | 34 | 68.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 55.6802 | 53.5032 | 58.0420 | 68.9130 | 84 | 73 | 83 | 60 | 52 | 86.6667 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m1_e0 | homalt | 69.5157 | 53.5088 | 99.1870 | 82.9167 | 122 | 106 | 122 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | hetalt | 69.7368 | 53.5354 | 100.0000 | 90.6028 | 53 | 46 | 53 | 0 | 0 | ||
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 56.8293 | 53.5459 | 60.5416 | 56.3805 | 974 | 845 | 1252 | 816 | 596 | 73.0392 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 56.8293 | 53.5459 | 60.5416 | 56.3805 | 974 | 845 | 1252 | 816 | 596 | 73.0392 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 57.2793 | 53.5509 | 61.5656 | 80.5733 | 7367 | 6390 | 10114 | 6314 | 1790 | 28.3497 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 57.2793 | 53.5509 | 61.5656 | 80.5733 | 7367 | 6390 | 10114 | 6314 | 1790 | 28.3497 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | * | 65.6309 | 53.5565 | 84.7345 | 81.1195 | 384 | 333 | 383 | 69 | 61 | 88.4058 | |
| anovak-vg | INDEL | D16_PLUS | map_l125_m2_e1 | * | 64.1711 | 53.5714 | 80.0000 | 91.5612 | 15 | 13 | 16 | 4 | 3 | 75.0000 | |
| ckim-gatk | SNP | * | map_l250_m1_e0 | * | 69.0461 | 53.5724 | 97.0891 | 96.1568 | 3869 | 3353 | 3869 | 116 | 9 | 7.7586 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 69.2731 | 53.6082 | 97.8723 | 31.8841 | 52 | 45 | 46 | 1 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m0_e0 | * | 69.6335 | 53.6290 | 99.2537 | 95.9184 | 266 | 230 | 266 | 2 | 0 | 0.0000 | |
| 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 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 67.6681 | 53.6481 | 91.6084 | 85.7570 | 125 | 108 | 262 | 24 | 23 | 95.8333 | |
| ckim-vqsr | SNP | * | map_l250_m2_e0 | het | 69.2853 | 53.6581 | 97.7552 | 97.1324 | 2787 | 2407 | 2787 | 64 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 65.1353 | 53.6585 | 82.8571 | 85.6026 | 198 | 171 | 290 | 60 | 5 | 8.3333 | |
| mlin-fermikit | INDEL | I1_5 | map_l125_m2_e0 | * | 67.2515 | 53.6756 | 90.0196 | 80.9186 | 460 | 397 | 460 | 51 | 46 | 90.1961 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | homalt | 69.8436 | 53.6851 | 99.9171 | 79.2054 | 2411 | 2080 | 2411 | 2 | 1 | 50.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 57.3590 | 53.6994 | 61.5538 | 40.3800 | 929 | 801 | 927 | 579 | 570 | 98.4456 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 62.0432 | 53.7002 | 73.4554 | 68.7187 | 283 | 244 | 321 | 116 | 109 | 93.9655 | |
| ciseli-custom | SNP | tv | map_l250_m2_e0 | het | 60.1108 | 53.7113 | 68.2415 | 93.5631 | 1042 | 898 | 1040 | 484 | 21 | 4.3388 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.8674 | 53.7223 | 92.1233 | 62.9442 | 267 | 230 | 269 | 23 | 17 | 73.9130 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m2_e0 | homalt | 64.6707 | 53.7313 | 81.2030 | 84.0528 | 108 | 93 | 108 | 25 | 23 | 92.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 66.9905 | 53.7415 | 88.9096 | 95.4327 | 948 | 816 | 954 | 119 | 18 | 15.1261 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 53.2962 | 53.7725 | 52.8282 | 94.9386 | 1461 | 1256 | 1485 | 1326 | 114 | 8.5973 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 69.5282 | 53.7870 | 98.2949 | 51.2231 | 980 | 842 | 980 | 17 | 16 | 94.1176 | |
| ciseli-custom | SNP | tv | map_l250_m2_e1 | het | 60.2121 | 53.7913 | 68.3733 | 93.6004 | 1057 | 908 | 1055 | 488 | 21 | 4.3033 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.7973 | 53.7975 | 91.6468 | 94.9895 | 765 | 657 | 768 | 70 | 16 | 22.8571 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 69.8324 | 53.8020 | 99.4695 | 52.3990 | 375 | 322 | 375 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.0990 | 53.8182 | 76.2478 | 70.5076 | 444 | 381 | 443 | 138 | 127 | 92.0290 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.0990 | 53.8182 | 76.2478 | 70.5076 | 444 | 381 | 443 | 138 | 127 | 92.0290 | |
| ckim-vqsr | SNP | tv | map_siren | homalt | 69.9947 | 53.8399 | 100.0000 | 68.1997 | 9282 | 7958 | 9279 | 0 | 0 | ||
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 67.5127 | 53.8462 | 90.4762 | 72.7273 | 21 | 18 | 19 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 66.4234 | 53.8462 | 86.6667 | 90.1316 | 14 | 12 | 13 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 70.0000 | 53.8462 | 100.0000 | 41.6667 | 7 | 6 | 7 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 70.0000 | 53.8462 | 100.0000 | 53.3333 | 7 | 6 | 7 | 0 | 0 | ||