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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4051-4100 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | * | HG002complexvar | het | 99.8148 | 99.6788 | 99.9511 | 18.4181 | 464005 | 1495 | 464235 | 227 | 59 | 25.9912 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | hetalt | 81.6710 | 100.0000 | 6657 | 1494 | 0 | 0 | 0 | ||||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 36.4192 | 29.7932 | 46.8354 | 63.9946 | 634 | 1494 | 629 | 714 | 663 | 92.8571 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 59.0350 | 46.7546 | 80.0643 | 63.0729 | 1311 | 1493 | 1245 | 310 | 228 | 73.5484 | |
| astatham-gatk | INDEL | * | HG002compoundhet | hetalt | 96.8345 | 94.0747 | 99.7612 | 51.5025 | 23688 | 1492 | 23812 | 57 | 56 | 98.2456 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 58.2603 | 63.0693 | 54.1327 | 69.0970 | 2548 | 1492 | 2790 | 2364 | 1096 | 46.3621 | |
| 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 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 40.1642 | 32.5939 | 52.3148 | 73.3785 | 720 | 1489 | 904 | 824 | 648 | 78.6408 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.2679 | 0.0000 | 0.0000 | 4 | 1489 | 0 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 81.9557 | 95.2253 | 71.9321 | 77.0498 | 29656 | 1487 | 30041 | 11722 | 436 | 3.7195 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 57.0872 | 46.0813 | 75.0000 | 33.7450 | 1270 | 1486 | 1368 | 456 | 454 | 99.5614 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | * | 77.4674 | 68.9900 | 88.3200 | 51.9231 | 3306 | 1486 | 3312 | 438 | 187 | 42.6941 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.4689 | 0.0000 | 0.0000 | 7 | 1486 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 33.4346 | 30.2162 | 37.4205 | 71.0821 | 643 | 1485 | 647 | 1082 | 1074 | 99.2606 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.5358 | 0.0000 | 0.0000 | 8 | 1485 | 0 | 0 | 0 | ||
| ciseli-custom | SNP | * | map_l100_m0_e0 | homalt | 87.9778 | 87.2289 | 88.7396 | 61.6447 | 10136 | 1484 | 10103 | 1282 | 1041 | 81.2012 | |
| gduggal-snapfb | INDEL | * | HG002complexvar | hetalt | 65.6662 | 59.9081 | 72.6490 | 79.8155 | 2216 | 1483 | 1097 | 413 | 281 | 68.0387 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 86.6565 | 78.2921 | 97.0220 | 41.1897 | 5345 | 1482 | 5343 | 164 | 163 | 99.3902 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 91.6583 | 85.8616 | 98.2945 | 30.7003 | 8994 | 1481 | 9279 | 161 | 143 | 88.8199 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 72.9780 | 57.9977 | 98.3917 | 46.7104 | 2045 | 1481 | 2080 | 34 | 34 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 72.9780 | 57.9977 | 98.3917 | 46.7104 | 2045 | 1481 | 2080 | 34 | 34 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | het | 93.2304 | 96.7393 | 89.9672 | 77.3983 | 43880 | 1479 | 43312 | 4830 | 369 | 7.6398 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.0366 | 91.2990 | 99.0933 | 69.4457 | 15498 | 1477 | 15300 | 140 | 72 | 51.4286 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.7755 | 59.7109 | 96.5075 | 47.3586 | 2189 | 1477 | 2183 | 79 | 55 | 69.6203 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.8504 | 59.7109 | 96.7642 | 46.8551 | 2189 | 1477 | 2183 | 73 | 54 | 73.9726 | |
| asubramanian-gatk | SNP | tv | map_l250_m1_e0 | het | 29.7001 | 17.4594 | 99.3631 | 98.7032 | 312 | 1475 | 312 | 2 | 0 | 0.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.2610 | 89.4954 | 99.5627 | 34.0219 | 12558 | 1474 | 12751 | 56 | 50 | 89.2857 | |
| ckim-gatk | SNP | tv | HG002complexvar | homalt | 99.2138 | 98.4513 | 99.9883 | 23.0317 | 93638 | 1473 | 93624 | 11 | 8 | 72.7273 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 91.0211 | 84.5394 | 98.5791 | 36.6641 | 8049 | 1472 | 8048 | 116 | 98 | 84.4828 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| rpoplin-dv42 | INDEL | I1_5 | * | * | 99.2493 | 99.0230 | 99.4767 | 57.6844 | 149192 | 1472 | 149236 | 785 | 730 | 92.9936 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 67.5308 | 74.8546 | 61.5124 | 50.8317 | 4376 | 1470 | 8728 | 5461 | 4703 | 86.1198 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 67.5308 | 74.8546 | 61.5124 | 50.8317 | 4376 | 1470 | 8728 | 5461 | 4703 | 86.1198 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7484 | 92.8627 | 96.7122 | 44.0182 | 19126 | 1470 | 19885 | 676 | 622 | 92.0118 | |
| gduggal-snapplat | SNP | ti | map_l125_m0_e0 | * | 91.6685 | 88.4893 | 95.0846 | 83.9409 | 11293 | 1469 | 11297 | 584 | 340 | 58.2192 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | * | 76.1535 | 69.3656 | 84.4139 | 46.8082 | 3324 | 1468 | 3320 | 613 | 606 | 98.8581 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 14.0515 | 0.0000 | 0.0000 | 240 | 1468 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 71.5827 | 62.3493 | 84.0263 | 65.9228 | 2431 | 1468 | 2425 | 461 | 430 | 93.2755 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.0595 | 38.1013 | 99.2214 | 43.7774 | 903 | 1467 | 892 | 7 | 6 | 85.7143 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.7950 | 62.4006 | 76.6496 | 65.6998 | 2433 | 1466 | 2393 | 729 | 415 | 56.9273 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | het | 78.5920 | 66.7348 | 95.5729 | 91.8237 | 2937 | 1464 | 2936 | 136 | 8 | 5.8824 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 60.4452 | 67.0715 | 55.0104 | 41.9298 | 2982 | 1464 | 4754 | 3888 | 3114 | 80.0926 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | homalt | 99.2171 | 98.4618 | 99.9840 | 23.0284 | 93648 | 1463 | 93634 | 15 | 13 | 86.6667 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.5067 | 90.7170 | 94.3684 | 38.1735 | 14297 | 1463 | 25772 | 1538 | 1472 | 95.7087 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 78.0369 | 75.9494 | 80.2425 | 77.9111 | 4620 | 1463 | 4699 | 1157 | 1067 | 92.2213 | |