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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
32851-32900 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6158 | 99.2821 | 99.9518 | 44.5938 | 6223 | 45 | 6223 | 3 | 2 | 66.6667 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.8776 | 91.0891 | 96.8421 | 93.5462 | 92 | 9 | 92 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6565 | 93.9394 | 95.3846 | 93.7977 | 62 | 4 | 62 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m1_e0 | homalt | 98.6465 | 97.5109 | 99.8089 | 85.2776 | 1567 | 40 | 1567 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m2_e0 | homalt | 98.7576 | 97.7130 | 99.8248 | 86.3182 | 1709 | 40 | 1709 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m2_e1 | homalt | 98.7739 | 97.7427 | 99.8271 | 86.3568 | 1732 | 40 | 1732 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8165 | 99.6633 | 99.9702 | 61.6256 | 10063 | 34 | 10063 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.6300 | 99.3177 | 99.9443 | 71.5425 | 5386 | 37 | 5386 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6312 | 99.4020 | 99.8614 | 63.7399 | 2161 | 13 | 2161 | 3 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4939 | 99.2069 | 99.7825 | 64.6320 | 1376 | 11 | 1376 | 3 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5825 | 99.3750 | 99.7908 | 68.8193 | 1431 | 9 | 1431 | 3 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.4518 | 99.2341 | 99.6703 | 69.5244 | 907 | 7 | 907 | 3 | 0 | 0.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5610 | 96.9697 | 98.1595 | 91.0341 | 160 | 5 | 160 | 3 | 1 | 33.3333 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.1660 | 96.7742 | 97.5610 | 90.7029 | 120 | 4 | 120 | 3 | 1 | 33.3333 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.6300 | 99.3177 | 99.9443 | 71.5425 | 5386 | 37 | 5386 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | func_cds | * | 98.8729 | 98.4270 | 99.3228 | 86.9360 | 438 | 7 | 440 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 90.3469 | 83.8323 | 97.9592 | 70.6587 | 140 | 27 | 144 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.0495 | 93.5622 | 98.6726 | 77.3774 | 218 | 15 | 223 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | homalt | 96.1134 | 92.8962 | 99.5614 | 86.8865 | 680 | 52 | 681 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e0 | homalt | 96.2060 | 93.0537 | 99.5792 | 87.7027 | 710 | 53 | 710 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e1 | homalt | 96.1924 | 93.0233 | 99.5851 | 87.7995 | 720 | 54 | 720 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l150_m1_e0 | homalt | 95.2710 | 91.5584 | 99.2974 | 89.4045 | 423 | 39 | 424 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e0 | homalt | 95.2388 | 91.4761 | 99.3243 | 90.2332 | 440 | 41 | 441 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | homalt | 95.3495 | 91.6667 | 99.3407 | 90.2129 | 451 | 41 | 452 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | C16_PLUS | HG002complexvar | homalt | 0.0000 | 0.0000 | 93.6170 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 25.0000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 25.0000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 0.0000 | 0.0000 | 91.4286 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 0.0000 | 0.0000 | 91.6667 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 0.0000 | 0.0000 | 57.1429 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 82.3529 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 88.0000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 25.0000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | * | hetalt | 0.0000 | 0.0000 | 82.3529 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | HG002compoundhet | hetalt | 0.0000 | 0.0000 | 62.5000 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.0000 | 82.3529 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 92.3077 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 91.6667 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.0000 | 82.3529 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 66.6667 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_l100_m2_e1 | * | 0.0000 | 0.0000 | 88.8889 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_l100_m2_e1 | het | 0.0000 | 0.0000 | 86.9565 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_siren | * | 0.0000 | 0.0000 | 95.9459 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | map_siren | het | 0.0000 | 0.0000 | 95.1613 | 0 | 0 | 0 | 3 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.9697 | 100.0000 | 94.1176 | 87.7990 | 52 | 0 | 48 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.6957 | 98.6957 | 98.6957 | 72.7488 | 227 | 3 | 227 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.0396 | 95.0980 | 97.0000 | 64.6643 | 97 | 5 | 97 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | SNP | ti | map_l250_m1_e0 | * | 32.0381 | 19.0871 | 99.6579 | 98.2478 | 874 | 3705 | 874 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | ti | map_l250_m1_e0 | het | 33.8831 | 20.4178 | 99.5074 | 98.4836 | 606 | 2362 | 606 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | homalt | 98.5034 | 97.1370 | 99.9088 | 42.9389 | 3291 | 97 | 3286 | 3 | 2 | 66.6667 | |