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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49501-49550 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 68.7192 | 73.8095 | 64.2857 | 97.6068 | 31 | 11 | 18 | 10 | 2 | 20.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 72.0000 | 81.8182 | 64.2857 | 67.4419 | 18 | 4 | 18 | 10 | 8 | 80.0000 | |
| qzeng-custom | INDEL | I16_PLUS | map_l150_m1_e0 | * | 63.9594 | 63.6364 | 64.2857 | 94.1909 | 7 | 4 | 9 | 5 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l150_m2_e1 | het | 60.0000 | 56.2500 | 64.2857 | 95.4173 | 9 | 7 | 18 | 10 | 2 | 20.0000 | |
| ciseli-custom | INDEL | D6_15 | segdup | homalt | 75.0000 | 90.0000 | 64.2857 | 93.2757 | 45 | 5 | 45 | 25 | 24 | 96.0000 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 60.5878 | 57.3058 | 64.2686 | 55.8452 | 6581 | 4903 | 7763 | 4316 | 3401 | 78.7998 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 78.0360 | 99.3263 | 64.2617 | 73.0595 | 1327 | 9 | 1336 | 743 | 6 | 0.8075 | |
| anovak-vg | INDEL | I1_5 | map_l150_m2_e1 | het | 50.9949 | 42.2713 | 64.2553 | 93.6383 | 134 | 183 | 151 | 84 | 8 | 9.5238 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.7790 | 63.3136 | 64.2512 | 66.5049 | 107 | 62 | 133 | 74 | 74 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.5000 | 97.6378 | 64.2487 | 59.3684 | 124 | 3 | 124 | 69 | 69 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 62.8595 | 61.5385 | 64.2384 | 88.8643 | 88 | 55 | 97 | 54 | 16 | 29.6296 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 67.8262 | 71.8519 | 64.2276 | 75.9766 | 97 | 38 | 79 | 44 | 37 | 84.0909 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | het | 47.9187 | 38.2239 | 64.2023 | 89.2961 | 297 | 480 | 330 | 184 | 31 | 16.8478 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.1726 | 72.6852 | 64.1876 | 28.7853 | 157 | 59 | 794 | 443 | 440 | 99.3228 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 77.1881 | 96.8041 | 64.1824 | 31.3791 | 10026 | 331 | 16242 | 9064 | 9022 | 99.5366 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m0_e0 | * | 62.0192 | 60.0000 | 64.1791 | 85.8351 | 9 | 6 | 43 | 24 | 16 | 66.6667 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.4719 | 85.9184 | 64.1753 | 76.0494 | 421 | 69 | 249 | 139 | 136 | 97.8417 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.2110 | 93.8346 | 64.1606 | 62.6038 | 624 | 41 | 1502 | 839 | 231 | 27.5328 | |
| anovak-vg | INDEL | D1_5 | map_l250_m0_e0 | * | 66.7485 | 69.5652 | 64.1509 | 98.1232 | 32 | 14 | 34 | 19 | 9 | 47.3684 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 70.7753 | 78.9709 | 64.1209 | 53.4898 | 4420 | 1177 | 8614 | 4820 | 4189 | 86.9087 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 77.7092 | 98.6486 | 64.1026 | 79.2920 | 73 | 1 | 75 | 42 | 35 | 83.3333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 52.0833 | 43.8596 | 64.1026 | 99.3572 | 25 | 32 | 25 | 14 | 11 | 78.5714 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.2406 | 42.6785 | 64.1003 | 68.1692 | 16176 | 21726 | 19332 | 10827 | 4241 | 39.1706 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 44.8785 | 34.5273 | 64.0937 | 56.3014 | 588 | 1115 | 1669 | 935 | 605 | 64.7059 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 44.8523 | 34.5009 | 64.0777 | 67.1975 | 197 | 374 | 198 | 111 | 78 | 70.2703 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.2734 | 94.2029 | 64.0777 | 91.7797 | 65 | 4 | 66 | 37 | 26 | 70.2703 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 58.9928 | 54.6667 | 64.0625 | 54.2857 | 41 | 34 | 41 | 23 | 22 | 95.6522 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 48.6764 | 39.2603 | 64.0343 | 80.0683 | 25657 | 39694 | 30253 | 16992 | 4936 | 29.0490 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 48.6764 | 39.2603 | 64.0343 | 80.0683 | 25657 | 39694 | 30253 | 16992 | 4936 | 29.0490 | |
| 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 | |
| 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 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 73.0691 | 85.1079 | 64.0141 | 42.9883 | 13413 | 2347 | 35693 | 20065 | 18085 | 90.1321 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e0 | hetalt | 22.4330 | 13.6000 | 64.0000 | 98.2970 | 17 | 108 | 16 | 9 | 5 | 55.5556 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m0_e0 | het | 72.7273 | 84.2105 | 64.0000 | 97.6460 | 16 | 3 | 16 | 9 | 2 | 22.2222 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.8922 | 93.2127 | 64.0000 | 92.1573 | 206 | 15 | 208 | 117 | 11 | 9.4017 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.0488 | 100.0000 | 64.0000 | 97.3461 | 16 | 0 | 16 | 9 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 40.7379 | 29.8780 | 64.0000 | 63.0542 | 49 | 115 | 48 | 27 | 26 | 96.2963 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m0_e0 | homalt | 61.0354 | 58.3333 | 64.0000 | 82.6389 | 7 | 5 | 16 | 9 | 0 | 0.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 28.0702 | 17.9775 | 64.0000 | 78.6325 | 16 | 73 | 16 | 9 | 8 | 88.8889 | |
| ckim-dragen | INDEL | D16_PLUS | map_l100_m0_e0 | het | 74.6228 | 89.4737 | 64.0000 | 97.0449 | 17 | 2 | 16 | 9 | 1 | 11.1111 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 54.4986 | 47.4734 | 63.9642 | 60.7084 | 4782 | 5291 | 5499 | 3098 | 1349 | 43.5442 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.5644 | 95.3537 | 63.9609 | 48.2339 | 6403 | 312 | 10480 | 5905 | 4553 | 77.1041 | |
| gduggal-snapfb | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 56.0716 | 49.9257 | 63.9431 | 62.6651 | 2017 | 2023 | 3506 | 1977 | 448 | 22.6606 | |
| gduggal-snapvard | INDEL | I6_15 | map_siren | * | 59.5493 | 55.7377 | 63.9205 | 78.6148 | 170 | 135 | 225 | 127 | 95 | 74.8031 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | * | 55.8350 | 49.5825 | 63.8921 | 47.3893 | 2375 | 2415 | 2794 | 1579 | 1240 | 78.5307 | |
| gduggal-snapvard | INDEL | D1_5 | tech_badpromoters | * | 63.5213 | 63.1579 | 63.8889 | 58.1395 | 12 | 7 | 23 | 13 | 10 | 76.9231 | |
| gduggal-snapvard | INDEL | I6_15 | func_cds | * | 62.1299 | 60.4651 | 63.8889 | 40.0000 | 26 | 17 | 23 | 13 | 12 | 92.3077 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 59.6849 | 56.0000 | 63.8889 | 83.7838 | 14 | 11 | 23 | 13 | 5 | 38.4615 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 76.4238 | 95.1325 | 63.8642 | 77.1773 | 18626 | 953 | 18983 | 10741 | 319 | 2.9699 | |