PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
40051-40100 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | * | map_l125_m0_e0 | homalt | 64.1166 | 47.1990 | 99.9369 | 61.5104 | 3168 | 3544 | 3168 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 64.1207 | 64.2111 | 64.0306 | 63.4499 | 1168 | 651 | 1004 | 564 | 554 | 98.2270 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 64.1207 | 64.2111 | 64.0306 | 63.4499 | 1168 | 651 | 1004 | 564 | 554 | 98.2270 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 64.1221 | 77.7778 | 54.5455 | 85.3333 | 7 | 2 | 6 | 5 | 4 | 80.0000 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 64.1221 | 47.1910 | 100.0000 | 79.8122 | 42 | 47 | 43 | 0 | 0 | ||
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 64.1239 | 47.4286 | 98.9583 | 48.3871 | 166 | 184 | 190 | 2 | 1 | 50.0000 | |
| gduggal-bwaplat | INDEL | * | map_l100_m1_e0 | hetalt | 64.1304 | 47.5806 | 98.3333 | 95.4853 | 59 | 65 | 59 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 64.1348 | 47.7733 | 97.5410 | 89.6698 | 118 | 129 | 119 | 3 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | segdup | * | 64.1368 | 51.0638 | 86.2069 | 84.3243 | 24 | 23 | 25 | 4 | 4 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.1449 | 48.2759 | 95.5556 | 76.5625 | 42 | 45 | 43 | 2 | 2 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m2_e0 | homalt | 64.1509 | 47.2222 | 100.0000 | 75.7143 | 17 | 19 | 17 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 64.1509 | 47.2222 | 100.0000 | 59.5238 | 17 | 19 | 17 | 0 | 0 | ||
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 64.1521 | 78.2895 | 54.3396 | 87.4882 | 119 | 33 | 144 | 121 | 38 | 31.4050 | |
| ckim-isaac | SNP | * | map_l250_m1_e0 | * | 64.1591 | 47.3553 | 99.4475 | 90.4206 | 3420 | 3802 | 3420 | 19 | 3 | 15.7895 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | homalt | 64.1655 | 47.2461 | 99.9635 | 77.1816 | 5490 | 6130 | 5484 | 2 | 2 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_l125_m2_e1 | * | 64.1711 | 53.5714 | 80.0000 | 91.5612 | 15 | 13 | 16 | 4 | 3 | 75.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.1957 | 56.1798 | 74.8799 | 61.8437 | 4700 | 3666 | 6078 | 2039 | 1497 | 73.4183 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m0_e0 | het | 64.2140 | 47.5248 | 98.9691 | 97.6861 | 96 | 106 | 96 | 1 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 64.2160 | 51.7316 | 84.6429 | 72.1670 | 239 | 223 | 237 | 43 | 41 | 95.3488 | |
| ckim-gatk | SNP | ti | map_l250_m0_e0 | * | 64.2229 | 47.9562 | 97.1893 | 97.9938 | 657 | 713 | 657 | 19 | 2 | 10.5263 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 64.2322 | 80.3030 | 53.5211 | 95.5261 | 53 | 13 | 38 | 33 | 1 | 3.0303 | |
| qzeng-custom | INDEL | D6_15 | map_l250_m2_e0 | het | 64.2336 | 57.1429 | 73.3333 | 98.2935 | 8 | 6 | 11 | 4 | 2 | 50.0000 | |
| qzeng-custom | INDEL | D6_15 | map_l250_m2_e1 | het | 64.2336 | 57.1429 | 73.3333 | 98.3221 | 8 | 6 | 11 | 4 | 2 | 50.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 64.2360 | 57.8454 | 72.2140 | 63.0306 | 10562 | 7697 | 13647 | 5251 | 3074 | 58.5412 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 64.2536 | 98.2249 | 47.7419 | 79.1667 | 166 | 3 | 74 | 81 | 79 | 97.5309 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 64.2663 | 78.7037 | 54.3046 | 76.0317 | 85 | 23 | 82 | 69 | 42 | 60.8696 | |
| ciseli-custom | SNP | ti | map_l250_m2_e0 | het | 64.2691 | 59.7419 | 69.5388 | 93.5208 | 1944 | 1310 | 1945 | 852 | 20 | 2.3474 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.2811 | 94.3173 | 48.7547 | 73.3962 | 1278 | 77 | 1292 | 1358 | 1314 | 96.7599 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | het | 64.2857 | 52.9412 | 81.8182 | 97.0667 | 9 | 8 | 9 | 2 | 2 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 64.2857 | 90.0000 | 50.0000 | 99.5663 | 9 | 1 | 7 | 7 | 0 | 0.0000 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | homalt | 64.2857 | 60.0000 | 69.2308 | 98.0168 | 15 | 10 | 18 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | D16_PLUS | map_l150_m2_e1 | * | 64.2857 | 50.0000 | 90.0000 | 94.5946 | 9 | 9 | 9 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m1_e0 | hetalt | 64.2857 | 47.3684 | 100.0000 | 84.9057 | 9 | 10 | 16 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e0 | hetalt | 64.2857 | 47.3684 | 100.0000 | 86.6667 | 9 | 10 | 16 | 0 | 0 | ||
| gduggal-snapfb | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 64.2857 | 47.3684 | 100.0000 | 90.9091 | 9 | 10 | 1 | 0 | 0 | ||
| mlin-fermikit | SNP | ti | map_l125_m2_e1 | * | 64.3036 | 50.3876 | 88.8389 | 61.3583 | 15403 | 15166 | 15402 | 1935 | 1705 | 88.1137 | |
| gduggal-bwaplat | INDEL | * | map_l150_m1_e0 | homalt | 64.3172 | 47.4026 | 100.0000 | 93.7819 | 219 | 243 | 219 | 0 | 0 | ||
| jmaeng-gatk | SNP | tv | map_l150_m0_e0 | homalt | 64.3185 | 47.4398 | 99.8415 | 86.2587 | 630 | 698 | 630 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 64.3216 | 84.4327 | 51.9481 | 54.2348 | 320 | 59 | 320 | 296 | 261 | 88.1757 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | * | 64.3231 | 47.6728 | 98.8465 | 91.2321 | 6084 | 6678 | 6084 | 71 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e0 | het | 64.3246 | 54.3478 | 78.7879 | 85.0679 | 25 | 21 | 26 | 7 | 4 | 57.1429 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 64.3273 | 59.5954 | 69.8756 | 29.2072 | 1031 | 699 | 1067 | 460 | 370 | 80.4348 | |
| anovak-vg | INDEL | * | map_l250_m0_e0 | het | 64.3289 | 71.6981 | 58.3333 | 98.2533 | 38 | 15 | 42 | 30 | 12 | 40.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 64.3340 | 49.2754 | 92.6471 | 74.9077 | 34 | 35 | 63 | 5 | 5 | 100.0000 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 64.3466 | 65.7191 | 63.0303 | 66.4559 | 10565 | 5511 | 13341 | 7825 | 6132 | 78.3642 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 64.3466 | 65.7191 | 63.0303 | 66.4559 | 10565 | 5511 | 13341 | 7825 | 6132 | 78.3642 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 64.3489 | 66.6667 | 62.1868 | 95.0669 | 2 | 1 | 273 | 166 | 40 | 24.0964 | |
| gduggal-snapfb | INDEL | D6_15 | map_siren | hetalt | 64.3533 | 51.5152 | 85.7143 | 76.2712 | 51 | 48 | 12 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l100_m1_e0 | het | 64.3552 | 47.4851 | 99.8174 | 85.5215 | 14218 | 15724 | 14214 | 26 | 10 | 38.4615 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 64.3676 | 52.1127 | 84.1584 | 21.7054 | 74 | 68 | 85 | 16 | 16 | 100.0000 | |