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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65801-65850 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6333 | 99.5812 | 99.6855 | 77.3934 | 951 | 4 | 951 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6855 | 99.5812 | 99.7901 | 80.3667 | 951 | 4 | 951 | 2 | 1 | 50.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7904 | 99.7906 | 99.7901 | 80.0042 | 953 | 2 | 951 | 2 | 1 | 50.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7378 | 99.5812 | 99.8950 | 79.8902 | 951 | 4 | 951 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7904 | 99.6859 | 99.8951 | 79.4035 | 952 | 3 | 952 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | * | segdup | homalt | 99.1667 | 99.1667 | 99.1667 | 93.6609 | 952 | 8 | 952 | 8 | 7 | 87.5000 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | het | 79.5099 | 74.9211 | 84.6975 | 89.9093 | 950 | 318 | 952 | 172 | 40 | 23.2558 | |
| jpowers-varprowl | INDEL | I1_5 | segdup | * | 91.1537 | 90.0850 | 92.2481 | 94.2204 | 954 | 105 | 952 | 80 | 67 | 83.7500 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 80.6824 | 72.6236 | 90.7531 | 35.9976 | 955 | 360 | 952 | 97 | 93 | 95.8763 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7906 | 99.7906 | 99.7906 | 80.5736 | 953 | 2 | 953 | 2 | 1 | 50.0000 | |
| rpoplin-dv42 | INDEL | D16_PLUS | HG002complexvar | het | 94.8719 | 95.3930 | 94.3564 | 62.7718 | 1056 | 51 | 953 | 57 | 52 | 91.2281 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8428 | 99.7906 | 99.8952 | 79.5848 | 953 | 2 | 953 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7906 | 99.7906 | 99.7906 | 80.4703 | 953 | 2 | 953 | 2 | 1 | 50.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8428 | 99.7906 | 99.8952 | 79.6675 | 953 | 2 | 953 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | * | map_l100_m0_e0 | het | 92.1663 | 93.3399 | 91.0220 | 88.6047 | 953 | 68 | 953 | 94 | 59 | 62.7660 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7906 | 99.7906 | 99.7906 | 80.2523 | 953 | 2 | 953 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 30.1806 | 24.9718 | 38.1353 | 46.7618 | 663 | 1992 | 953 | 1546 | 1250 | 80.8538 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7906 | 99.7906 | 99.7906 | 80.3781 | 953 | 2 | 953 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 61.0689 | 88.2353 | 46.6928 | 58.7927 | 960 | 128 | 953 | 1088 | 1026 | 94.3015 | |
| ckim-isaac | INDEL | * | map_l125_m2_e0 | het | 80.7469 | 68.4400 | 98.4504 | 89.8946 | 952 | 439 | 953 | 15 | 5 | 33.3333 | |
| ciseli-custom | SNP | tv | map_l250_m1_e0 | het | 59.5668 | 53.4415 | 67.2779 | 93.2143 | 955 | 832 | 954 | 464 | 21 | 4.5259 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 66.9905 | 53.7415 | 88.9096 | 95.4327 | 948 | 816 | 954 | 119 | 18 | 15.1261 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 60.8995 | 44.8091 | 95.0199 | 66.3989 | 669 | 824 | 954 | 50 | 47 | 94.0000 | |
| ndellapenna-hhga | INDEL | * | segdup | homalt | 99.1684 | 99.3750 | 98.9627 | 93.3714 | 954 | 6 | 954 | 10 | 9 | 90.0000 | |
| ckim-vqsr | SNP | tv | map_l150_m2_e0 | homalt | 37.8797 | 23.3652 | 100.0000 | 91.8062 | 954 | 3129 | 954 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | HG002complexvar | het | 40.0214 | 28.2378 | 68.6825 | 52.4803 | 665 | 1690 | 954 | 435 | 281 | 64.5977 | |
| jlack-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 92.4487 | 89.3386 | 95.7831 | 48.0438 | 905 | 108 | 954 | 42 | 37 | 88.0952 | |
| ltrigg-rtg2 | INDEL | * | segdup | homalt | 99.5827 | 99.4792 | 99.6865 | 92.2340 | 955 | 5 | 954 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | * | segdup | homalt | 99.6351 | 99.5833 | 99.6868 | 92.9210 | 956 | 4 | 955 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.1028 | 94.4279 | 95.7874 | 61.2966 | 949 | 56 | 955 | 42 | 40 | 95.2381 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3235 | 99.6859 | 98.9637 | 77.1327 | 952 | 3 | 955 | 10 | 1 | 10.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | segdup | * | 94.4660 | 90.2738 | 99.0664 | 96.2092 | 956 | 103 | 955 | 9 | 6 | 66.6667 | |
| gduggal-bwavard | INDEL | I1_5 | segdup | * | 92.2615 | 90.9348 | 93.6275 | 94.8607 | 963 | 96 | 955 | 65 | 56 | 86.1538 | |
| jlack-gatk | INDEL | * | segdup | homalt | 99.3240 | 99.4792 | 99.1693 | 93.4858 | 955 | 5 | 955 | 8 | 8 | 100.0000 | |
| egarrison-hhga | INDEL | * | segdup | homalt | 99.4792 | 99.4792 | 99.4792 | 93.5414 | 955 | 5 | 955 | 5 | 5 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | segdup | homalt | 99.2731 | 99.5833 | 98.9648 | 93.2239 | 956 | 4 | 956 | 10 | 9 | 90.0000 | |
| qzeng-custom | INDEL | * | segdup | homalt | 98.3551 | 99.4792 | 97.2561 | 92.3549 | 955 | 5 | 957 | 27 | 15 | 55.5556 | |
| ltrigg-rtg1 | INDEL | C1_5 | HG002complexvar | * | 91.9971 | 85.7143 | 99.2739 | 88.1471 | 6 | 1 | 957 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | * | segdup | homalt | 99.4802 | 99.6875 | 99.2739 | 93.3014 | 957 | 3 | 957 | 7 | 6 | 85.7143 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3339 | 57.7444 | 89.9436 | 58.0772 | 384 | 281 | 957 | 107 | 104 | 97.1963 | |
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.4054 | 96.4718 | 98.3573 | 68.7720 | 957 | 35 | 958 | 16 | 6 | 37.5000 | |
| cchapple-custom | INDEL | * | segdup | homalt | 99.5843 | 99.8958 | 99.2746 | 93.0445 | 959 | 1 | 958 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 90.4890 | 90.6867 | 90.2922 | 79.9205 | 964 | 99 | 958 | 103 | 83 | 80.5825 | |
| dgrover-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.7134 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 93.8949 | 90.4986 | 97.5560 | 73.6447 | 962 | 101 | 958 | 24 | 8 | 33.3333 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.3325 | 89.8592 | 99.2746 | 57.8234 | 957 | 108 | 958 | 7 | 4 | 57.1429 | |
| ckim-vqsr | INDEL | * | segdup | homalt | 99.3776 | 99.7917 | 98.9669 | 93.6950 | 958 | 2 | 958 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | INDEL | * | segdup | homalt | 99.6878 | 99.7917 | 99.5842 | 93.1783 | 958 | 2 | 958 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | segdup | homalt | 99.6360 | 99.7917 | 99.4808 | 93.2596 | 958 | 2 | 958 | 5 | 4 | 80.0000 | |