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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79851-79900 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | * | segdupwithalt | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | * | segdupwithalt | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | * | segdupwithalt | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | * | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 49.3506 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | * | tech_badpromoters | het | 98.6842 | 97.4026 | 100.0000 | 51.9231 | 75 | 2 | 75 | 0 | 0 | ||
| asubramanian-gatk | SNP | * | tech_badpromoters | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| asubramanian-gatk | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 46.7105 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | * | * | 99.0306 | 98.1234 | 99.9548 | 19.2315 | 2046375 | 39136 | 2046316 | 926 | 90 | 9.7192 | |
| asubramanian-gatk | SNP | ti | * | het | 99.0688 | 98.2225 | 99.9298 | 21.0842 | 1259105 | 22786 | 1259055 | 884 | 67 | 7.5792 | |
| asubramanian-gatk | SNP | ti | * | hetalt | 95.6522 | 94.5017 | 96.8310 | 46.4151 | 550 | 32 | 550 | 18 | 1 | 5.5556 | |
| asubramanian-gatk | SNP | ti | * | homalt | 98.9721 | 97.9680 | 99.9969 | 16.0441 | 786720 | 16318 | 786711 | 24 | 22 | 91.6667 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | * | 98.3380 | 96.7457 | 99.9835 | 17.8536 | 491890 | 16546 | 491830 | 81 | 36 | 44.4444 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | het | 98.4409 | 96.9492 | 99.9794 | 17.3446 | 305163 | 9603 | 305113 | 63 | 21 | 33.3333 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | hetalt | 94.4724 | 90.8213 | 98.4293 | 40.4984 | 188 | 19 | 188 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | HG002complexvar | homalt | 98.1740 | 96.4210 | 99.9920 | 18.6413 | 186539 | 6924 | 186529 | 15 | 15 | 100.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | * | 98.1691 | 96.6358 | 99.7519 | 35.8566 | 16890 | 588 | 16888 | 42 | 17 | 40.4762 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | het | 98.1344 | 96.5702 | 99.7500 | 39.9164 | 9179 | 326 | 9177 | 23 | 14 | 60.8696 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | hetalt | 95.8808 | 94.4732 | 97.3310 | 25.3652 | 547 | 32 | 547 | 15 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | homalt | 98.3931 | 96.8894 | 99.9442 | 30.6032 | 7164 | 230 | 7164 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | SNP | ti | decoy | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | decoy | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | decoy | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | func_cds | * | 99.6805 | 99.5721 | 99.7892 | 27.6472 | 13728 | 59 | 13726 | 29 | 1 | 3.4483 | |
| asubramanian-gatk | SNP | ti | func_cds | het | 99.6530 | 99.6472 | 99.6589 | 31.5760 | 8474 | 30 | 8472 | 29 | 1 | 3.4483 | |
| asubramanian-gatk | SNP | ti | func_cds | hetalt | 100.0000 | 100.0000 | 100.0000 | 52.9412 | 8 | 0 | 8 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | func_cds | homalt | 99.7244 | 99.4502 | 100.0000 | 20.1522 | 5246 | 29 | 5246 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7149 | 98.1219 | 99.3151 | 65.8879 | 3187 | 61 | 3190 | 22 | 6 | 27.2727 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6320 | 97.9249 | 99.3493 | 69.0808 | 1982 | 42 | 1985 | 13 | 5 | 38.4615 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 73.3333 | 0 | 0 | 0 | 8 | 0 | 0.0000 | ||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1770 | 98.4477 | 99.9171 | 58.7551 | 1205 | 19 | 1205 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_gt200bp_gt95identity_merged | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2429 | 98.9091 | 99.5790 | 55.5792 | 27654 | 305 | 27674 | 117 | 13 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1774 | 98.9300 | 99.4261 | 58.2999 | 17660 | 191 | 17671 | 102 | 10 | 9.8039 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 41.6667 | 83.3333 | 27.7778 | 84.0708 | 5 | 1 | 5 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4277 | 98.8814 | 99.9800 | 49.5688 | 9989 | 113 | 9998 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1776 | 97.0330 | 99.3494 | 70.2755 | 30219 | 924 | 30236 | 198 | 22 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 58.5366 | 100.0000 | 41.3793 | 83.7989 | 12 | 0 | 12 | 17 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4262 | 96.9096 | 99.9911 | 63.7599 | 11195 | 357 | 11199 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.1337 | 98.6144 | 99.6585 | 48.5413 | 2918 | 41 | 2918 | 10 | 2 | 20.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0398 | 98.5800 | 99.5039 | 51.7553 | 1805 | 26 | 1805 | 9 | 1 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2864 | 98.6702 | 99.9102 | 42.2199 | 1113 | 15 | 1113 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||