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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85101-85150 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | * | HG002complexvar | het | 89.8971 | 82.6214 | 98.5779 | 61.4508 | 38181 | 8031 | 38126 | 550 | 282 | 51.2727 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.2482 | 0.0000 | 0.0000 | 20 | 8039 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.2482 | 0.0000 | 0.0000 | 20 | 8039 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 27.5552 | 0.0000 | 0.0000 | 3060 | 8045 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.5435 | 0.0000 | 0.0000 | 44 | 8051 | 0 | 0 | 0 | ||
| gduggal-snapplat | SNP | tv | HG002complexvar | * | 97.5342 | 96.7281 | 98.3538 | 26.8142 | 238101 | 8054 | 238450 | 3991 | 673 | 16.8629 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.4818 | 0.0000 | 0.0000 | 39 | 8056 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 79.8081 | 77.9624 | 81.7434 | 39.7623 | 28528 | 8064 | 48773 | 10893 | 10778 | 98.9443 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.4286 | 49.6853 | 62.6733 | 53.8178 | 7973 | 8074 | 8093 | 4820 | 3647 | 75.6639 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.2347 | 0.0000 | 0.0000 | 19 | 8076 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 77.7734 | 73.4547 | 82.6317 | 60.7271 | 22389 | 8091 | 34940 | 7344 | 2239 | 30.4875 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 77.7734 | 73.4547 | 82.6317 | 60.7271 | 22389 | 8091 | 34940 | 7344 | 2239 | 30.4875 | |
| gduggal-bwaplat | SNP | * | map_l150_m1_e0 | het | 73.2588 | 58.0710 | 99.2046 | 91.8292 | 11217 | 8099 | 11225 | 90 | 26 | 28.8889 | |
| anovak-vg | SNP | * | map_l100_m1_e0 | * | 84.0947 | 88.8016 | 79.8617 | 69.2688 | 64295 | 8108 | 63514 | 16016 | 3537 | 22.0842 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | het | 76.0794 | 61.7119 | 99.1672 | 89.0304 | 13086 | 8119 | 13098 | 110 | 34 | 30.9091 | |
| ghariani-varprowl | INDEL | D6_15 | HG002compoundhet | hetalt | 0.0000 | 0.3926 | 0.0000 | 0.0000 | 32 | 8119 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | hetalt | 0.0000 | 0.3803 | 0.0000 | 0.0000 | 31 | 8120 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | * | homalt | 94.4791 | 93.5105 | 95.4679 | 58.3050 | 117049 | 8123 | 117099 | 5559 | 3925 | 70.6062 | |
| ciseli-custom | SNP | ti | map_l100_m1_e0 | * | 86.1026 | 83.0465 | 89.3922 | 69.2811 | 39805 | 8126 | 39742 | 4716 | 1317 | 27.9262 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.5384 | 0.0000 | 0.0000 | 44 | 8129 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | HG002compoundhet | hetalt | 0.0000 | 0.2576 | 0.0000 | 0.0000 | 21 | 8130 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 44.7752 | 41.0011 | 49.3146 | 53.2015 | 5652 | 8133 | 5684 | 5842 | 5100 | 87.2989 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.4772 | 0.0000 | 0.0000 | 39 | 8134 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | * | hetalt | 0.0000 | 0.3915 | 0.0000 | 0.0000 | 32 | 8142 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | * | hetalt | 0.0000 | 0.3793 | 0.0000 | 0.0000 | 31 | 8143 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | map_l125_m1_e0 | homalt | 41.5806 | 26.2472 | 100.0000 | 86.8829 | 2899 | 8146 | 2899 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | * | hetalt | 0.0000 | 0.2691 | 0.0000 | 0.0000 | 22 | 8152 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.2325 | 0.0000 | 0.0000 | 19 | 8154 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 50.1585 | 49.1836 | 51.1729 | 59.7079 | 7892 | 8154 | 7919 | 7556 | 5150 | 68.1578 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 54.5816 | 47.5637 | 64.0290 | 69.1270 | 7409 | 8168 | 14395 | 8087 | 6755 | 83.5291 | |
| ciseli-custom | SNP | * | map_l150_m1_e0 | * | 77.9234 | 73.3052 | 83.1626 | 80.2472 | 22438 | 8171 | 22404 | 4536 | 1124 | 24.7795 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e0 | het | 74.3081 | 59.3950 | 99.2206 | 92.2348 | 11958 | 8175 | 11966 | 94 | 27 | 28.7234 | |
| gduggal-bwavard | INDEL | D6_15 | HG002compoundhet | * | 10.9462 | 9.3899 | 13.1210 | 37.7051 | 848 | 8183 | 832 | 5509 | 5456 | 99.0379 | |
| ciseli-custom | SNP | ti | map_l100_m2_e0 | * | 86.2627 | 83.2663 | 89.4829 | 71.0430 | 40768 | 8193 | 40704 | 4784 | 1327 | 27.7383 | |
| ghariani-varprowl | INDEL | D6_15 | HG002compoundhet | * | 10.6907 | 9.2349 | 12.6916 | 39.6150 | 834 | 8197 | 828 | 5696 | 5632 | 98.8764 | |
| ckim-vqsr | SNP | * | map_l100_m0_e0 | homalt | 45.4479 | 29.4062 | 100.0000 | 84.0267 | 3417 | 8203 | 3417 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | HG002compoundhet | * | 40.3635 | 33.5626 | 50.6211 | 62.9728 | 4147 | 8209 | 5624 | 5486 | 4446 | 81.0427 | |
| anovak-vg | SNP | * | map_l100_m2_e0 | * | 84.2603 | 88.9000 | 80.0809 | 71.0026 | 65754 | 8210 | 64960 | 16158 | 3566 | 22.0696 | |
| ckim-isaac | SNP | * | map_l150_m2_e0 | het | 74.2562 | 59.1914 | 99.6072 | 80.1907 | 11917 | 8216 | 11918 | 47 | 8 | 17.0213 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | het | 74.4402 | 59.5688 | 99.2072 | 92.2354 | 12130 | 8233 | 12138 | 97 | 27 | 27.8351 | |
| mlin-fermikit | SNP | tv | map_l125_m1_e0 | * | 61.8003 | 48.5452 | 85.0126 | 58.2565 | 7775 | 8241 | 7771 | 1370 | 1205 | 87.9562 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | homalt | 43.0457 | 27.4256 | 100.0000 | 87.5971 | 3115 | 8243 | 3115 | 0 | 0 | ||
| ciseli-custom | SNP | ti | map_l100_m2_e1 | * | 86.3257 | 83.3424 | 89.5306 | 71.0284 | 41242 | 8243 | 41176 | 4815 | 1336 | 27.7466 | |
| qzeng-custom | SNP | ti | map_l125_m1_e0 | * | 82.7982 | 71.8971 | 97.5960 | 82.1188 | 21091 | 8244 | 20948 | 516 | 435 | 84.3023 | |
| ckim-vqsr | SNP | * | HG002complexvar | het | 99.0965 | 98.2281 | 99.9803 | 19.3098 | 457249 | 8248 | 457124 | 90 | 32 | 35.5556 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.1270 | 87.3774 | 95.2128 | 60.8815 | 57102 | 8249 | 63963 | 3216 | 2822 | 87.7488 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.1270 | 87.3774 | 95.2128 | 60.8815 | 57102 | 8249 | 63963 | 3216 | 2822 | 87.7488 | |
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | * | 9.9769 | 8.5262 | 12.0225 | 38.0227 | 770 | 8261 | 768 | 5620 | 5568 | 99.0747 | |
| anovak-vg | SNP | * | map_l100_m2_e1 | * | 84.3316 | 88.9439 | 80.1741 | 71.0026 | 66474 | 8263 | 65661 | 16237 | 3582 | 22.0607 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | het | 57.7466 | 40.8496 | 98.4828 | 55.5044 | 5712 | 8271 | 5712 | 88 | 4 | 4.5455 | |