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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9901-9950 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I1_5 | * | homalt | 99.5606 | 99.5449 | 99.5763 | 55.0778 | 60153 | 275 | 60163 | 256 | 247 | 96.4844 | |
| hfeng-pmm1 | INDEL | I1_5 | * | homalt | 99.7725 | 99.7799 | 99.7651 | 52.5960 | 60295 | 133 | 60299 | 142 | 137 | 96.4789 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.8339 | 78.4314 | 35.4545 | 62.0035 | 80 | 22 | 78 | 142 | 137 | 96.4789 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2837 | 99.7301 | 96.8787 | 61.7262 | 11453 | 31 | 11453 | 369 | 356 | 96.4770 | |
| rpoplin-dv42 | INDEL | I6_15 | * | het | 96.6553 | 97.2291 | 96.0883 | 56.6301 | 9755 | 278 | 9752 | 397 | 383 | 96.4736 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.1831 | 83.0612 | 73.8462 | 79.1933 | 407 | 83 | 240 | 85 | 82 | 96.4706 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 74.7226 | 73.9078 | 75.5556 | 71.1230 | 609 | 215 | 612 | 198 | 191 | 96.4646 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.2150 | 96.6216 | 68.5714 | 72.6918 | 429 | 15 | 432 | 198 | 191 | 96.4646 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 89.1158 | 94.4808 | 84.3273 | 67.4932 | 2020 | 118 | 2432 | 452 | 436 | 96.4602 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6655 | 98.1110 | 99.2262 | 52.5551 | 14491 | 279 | 14491 | 113 | 109 | 96.4602 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 78.6552 | 86.4019 | 72.1833 | 72.7812 | 5547 | 873 | 5561 | 2143 | 2067 | 96.4536 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 78.6552 | 86.4019 | 72.1833 | 72.7812 | 5547 | 873 | 5561 | 2143 | 2067 | 96.4536 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.8394 | 89.3309 | 94.4928 | 61.1176 | 5434 | 649 | 5319 | 310 | 299 | 96.4516 | |
| gduggal-snapfb | INDEL | * | HG002compoundhet | homalt | 22.9146 | 84.6939 | 13.2497 | 72.0594 | 581 | 105 | 581 | 3804 | 3669 | 96.4511 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3310 | 98.9920 | 95.7248 | 68.7757 | 3830 | 39 | 3784 | 169 | 163 | 96.4497 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 90.9278 | 97.6646 | 85.0604 | 50.5657 | 4642 | 111 | 4646 | 816 | 787 | 96.4461 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0738 | 98.6992 | 95.5010 | 61.0266 | 15555 | 205 | 15517 | 731 | 705 | 96.4432 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 89.2273 | 86.8923 | 91.6913 | 54.4965 | 3414 | 515 | 3410 | 309 | 298 | 96.4401 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 85.0606 | 95.7652 | 76.5084 | 52.6827 | 13998 | 619 | 15343 | 4711 | 4543 | 96.4339 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 88.2321 | 85.5737 | 91.0609 | 53.6742 | 26877 | 4531 | 26832 | 2634 | 2540 | 96.4313 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 95.2238 | 96.6140 | 93.8731 | 40.3394 | 428 | 15 | 429 | 28 | 27 | 96.4286 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.8965 | 92.6829 | 87.2727 | 88.8945 | 190 | 15 | 192 | 28 | 27 | 96.4286 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 89.8965 | 92.6829 | 87.2727 | 88.8945 | 190 | 15 | 192 | 28 | 27 | 96.4286 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9010 | 100.0000 | 95.8884 | 72.2268 | 653 | 0 | 653 | 28 | 27 | 96.4286 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.5412 | 99.5261 | 88.2353 | 68.7254 | 210 | 1 | 210 | 28 | 27 | 96.4286 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.7175 | 97.4908 | 88.3898 | 77.5276 | 1321 | 34 | 1279 | 168 | 162 | 96.4286 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002compoundhet | homalt | 92.8474 | 93.6170 | 92.0904 | 71.4055 | 308 | 21 | 326 | 28 | 27 | 96.4286 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | homalt | 45.0525 | 29.6785 | 93.4732 | 26.9165 | 360 | 853 | 401 | 28 | 27 | 96.4286 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.4446 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.7426 | 96.1442 | 99.3950 | 25.7739 | 4588 | 184 | 4600 | 28 | 27 | 96.4286 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.7778 | 100.0000 | 88.2845 | 69.8232 | 211 | 0 | 211 | 28 | 27 | 96.4286 | |
| jpowers-varprowl | INDEL | * | func_cds | het | 90.4977 | 93.4579 | 87.7193 | 46.9767 | 200 | 14 | 200 | 28 | 27 | 96.4286 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 34.7933 | 24.1573 | 62.1622 | 74.0351 | 43 | 135 | 46 | 28 | 27 | 96.4286 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.8138 | 96.2869 | 99.3900 | 32.9111 | 6431 | 248 | 13686 | 84 | 81 | 96.4286 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.0672 | 96.6017 | 99.5778 | 24.0929 | 6595 | 232 | 6604 | 28 | 27 | 96.4286 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | homalt | 89.7866 | 85.3041 | 94.7664 | 81.8274 | 505 | 87 | 507 | 28 | 27 | 96.4286 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6772 | 96.0184 | 99.3942 | 25.6555 | 4582 | 190 | 4594 | 28 | 27 | 96.4286 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.3412 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | homalt | 99.7010 | 99.9186 | 99.4844 | 57.3638 | 27005 | 22 | 27015 | 140 | 135 | 96.4286 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 89.0761 | 81.4952 | 98.2120 | 71.9556 | 1537 | 349 | 1538 | 28 | 27 | 96.4286 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 26.6884 | 15.5852 | 92.8021 | 65.3298 | 257 | 1392 | 361 | 28 | 27 | 96.4286 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 85.3531 | 80.8576 | 90.3780 | 61.9856 | 528 | 125 | 526 | 56 | 54 | 96.4286 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.8733 | 81.0734 | 91.2773 | 61.1380 | 287 | 67 | 293 | 28 | 27 | 96.4286 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002complexvar | hetalt | 79.1588 | 66.5701 | 97.6190 | 80.6928 | 1149 | 577 | 1148 | 28 | 27 | 96.4286 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 19.5122 | 17.3913 | 22.2222 | 55.5556 | 8 | 38 | 8 | 28 | 27 | 96.4286 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 59.5761 | 58.3242 | 60.8829 | 60.3781 | 21342 | 15250 | 21309 | 13691 | 13201 | 96.4210 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 76.4099 | 73.8404 | 79.1646 | 73.0862 | 1592 | 564 | 1592 | 419 | 404 | 96.4200 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.0896 | 95.8333 | 76.5120 | 54.1586 | 552 | 24 | 544 | 167 | 161 | 96.4072 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 62.7472 | 53.2934 | 76.2784 | 60.3827 | 534 | 468 | 537 | 167 | 161 | 96.4072 | |