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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
55751-55800 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8928 | 99.8104 | 96.0474 | 55.7633 | 3159 | 6 | 3159 | 130 | 127 | 97.6923 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.6018 | 99.6636 | 99.5400 | 55.7604 | 11258 | 38 | 11253 | 52 | 41 | 78.8462 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.4225 | 97.6048 | 97.2409 | 55.7572 | 1304 | 32 | 1304 | 37 | 14 | 37.8378 | |
| qzeng-custom | INDEL | * | HG002compoundhet | het | 90.0667 | 93.8691 | 86.5604 | 55.7571 | 3843 | 251 | 30091 | 4672 | 2782 | 59.5462 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 55.7522 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4699 | 97.9603 | 96.9843 | 55.7493 | 19787 | 412 | 20132 | 626 | 469 | 74.9201 | |
| ciseli-custom | INDEL | D6_15 | HG002complexvar | * | 60.6154 | 60.3471 | 60.8861 | 55.7398 | 3199 | 2102 | 3202 | 2057 | 1257 | 61.1084 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7040 | 99.5894 | 99.8189 | 55.7321 | 6063 | 25 | 6063 | 11 | 10 | 90.9091 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4027 | 98.2214 | 98.5847 | 55.7301 | 31423 | 569 | 31346 | 450 | 436 | 96.8889 | |
| gduggal-snapvard | INDEL | D1_5 | * | * | 87.8248 | 91.1601 | 84.7249 | 55.7284 | 133771 | 12972 | 160064 | 28858 | 22853 | 79.1912 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | homalt | 98.2186 | 99.9176 | 96.5764 | 55.7279 | 1213 | 1 | 1213 | 43 | 43 | 100.0000 | |
| ckim-dragen | SNP | tv | HG002compoundhet | het | 99.7327 | 99.6362 | 99.8294 | 55.7255 | 4656 | 17 | 4682 | 8 | 3 | 37.5000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.3386 | 84.0580 | 100.0000 | 55.7252 | 58 | 11 | 58 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.8145 | 99.6296 | 100.0000 | 55.7214 | 269 | 1 | 267 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | * | * | 99.4769 | 99.2395 | 99.7155 | 55.7210 | 145629 | 1116 | 145463 | 415 | 145 | 34.9398 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.9214 | 99.9010 | 99.9417 | 55.7201 | 17160 | 17 | 17156 | 10 | 8 | 80.0000 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 22.5601 | 18.5079 | 28.8840 | 55.7171 | 129 | 568 | 132 | 325 | 240 | 73.8462 | |
| astatham-gatk | SNP | tv | tech_badpromoters | het | 96.8750 | 93.9394 | 100.0000 | 55.7143 | 31 | 2 | 31 | 0 | 0 | ||
| qzeng-custom | INDEL | * | tech_badpromoters | homalt | 96.8718 | 96.9697 | 96.7742 | 55.7143 | 32 | 1 | 30 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8486 | 98.4572 | 99.2431 | 55.7060 | 16912 | 265 | 16914 | 129 | 121 | 93.7984 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.6167 | 62.4637 | 66.9234 | 55.7051 | 1506 | 905 | 1564 | 773 | 382 | 49.4179 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 99.2405 | 99.4924 | 98.9899 | 55.7047 | 196 | 1 | 196 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.4612 | 95.3252 | 93.6128 | 55.7029 | 469 | 23 | 469 | 32 | 25 | 78.1250 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 37.1836 | 23.0932 | 95.3795 | 55.7018 | 218 | 726 | 289 | 14 | 14 | 100.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 41.4960 | 66.6208 | 30.1322 | 55.6999 | 1451 | 727 | 1459 | 3383 | 3363 | 99.4088 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2447 | 97.1397 | 99.3753 | 55.6990 | 15588 | 459 | 15589 | 98 | 89 | 90.8163 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002compoundhet | het | 4.7472 | 34.0426 | 2.5515 | 55.6957 | 16 | 31 | 26 | 993 | 986 | 99.2951 | |
| ckim-dragen | SNP | * | map_l100_m1_e0 | homalt | 99.6437 | 99.4186 | 99.8698 | 55.6951 | 26846 | 157 | 26851 | 35 | 32 | 91.4286 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 84.7537 | 83.5791 | 85.9619 | 55.6947 | 36219 | 7116 | 36061 | 5889 | 5747 | 97.5887 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7792 | 98.5236 | 99.0362 | 55.6925 | 10944 | 164 | 10892 | 106 | 23 | 21.6981 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 82.5452 | 70.6189 | 99.3183 | 55.6924 | 1894 | 788 | 1894 | 13 | 13 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7285 | 99.8188 | 99.6383 | 55.6923 | 6061 | 11 | 6061 | 22 | 22 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.2899 | 99.4234 | 97.1820 | 55.6903 | 1207 | 7 | 1207 | 35 | 34 | 97.1429 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.1392 | 99.9176 | 96.4229 | 55.6886 | 1213 | 1 | 1213 | 45 | 45 | 100.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 91.6770 | 95.2628 | 88.3513 | 55.6869 | 1468 | 73 | 6227 | 821 | 401 | 48.8429 | |
| qzeng-custom | INDEL | * | HG002compoundhet | * | 82.2978 | 79.3825 | 85.4354 | 55.6867 | 23783 | 6177 | 36410 | 6207 | 4106 | 66.1511 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | * | 72.9339 | 60.8681 | 90.9660 | 55.6863 | 45491 | 29246 | 45483 | 4517 | 3972 | 87.9345 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 81.3513 | 68.8197 | 99.4627 | 55.6845 | 1481 | 671 | 1481 | 8 | 5 | 62.5000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7968 | 99.6842 | 99.9096 | 55.6842 | 11049 | 35 | 11049 | 10 | 7 | 70.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7466 | 99.8734 | 99.6200 | 55.6834 | 1578 | 2 | 1573 | 6 | 1 | 16.6667 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.5480 | 97.7849 | 99.3232 | 55.6830 | 27634 | 626 | 27589 | 188 | 94 | 50.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.5882 | 83.6957 | 98.7179 | 55.6818 | 77 | 15 | 77 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.1709 | 99.7794 | 96.6134 | 55.6813 | 9500 | 21 | 9500 | 333 | 330 | 99.0991 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2325 | 99.9052 | 94.6990 | 55.6809 | 3162 | 3 | 3162 | 177 | 175 | 98.8701 | |
| asubramanian-gatk | INDEL | I6_15 | * | homalt | 97.0392 | 99.0223 | 95.1340 | 55.6784 | 6178 | 61 | 6178 | 316 | 307 | 97.1519 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.4147 | 91.9985 | 88.8845 | 55.6709 | 14763 | 1284 | 15793 | 1975 | 866 | 43.8481 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.7947 | 99.0383 | 98.5524 | 55.6705 | 16271 | 158 | 31384 | 461 | 49 | 10.6291 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 57.8173 | 89.4447 | 42.7138 | 55.6700 | 3254 | 384 | 3236 | 4340 | 4025 | 92.7419 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 72.0906 | 64.0796 | 82.3907 | 55.6695 | 644 | 361 | 641 | 137 | 133 | 97.0803 | |
| ltrigg-rtg1 | INDEL | D1_5 | * | * | 99.2818 | 98.7945 | 99.7740 | 55.6693 | 144976 | 1769 | 144802 | 328 | 127 | 38.7195 | |