PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57551-57600 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.3155 | 95.0867 | 93.5567 | 70.3591 | 329 | 17 | 363 | 25 | 13 | 52.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.3152 | 95.0875 | 99.6497 | 51.5280 | 1684 | 87 | 1707 | 6 | 5 | 83.3333 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m1_e0 | het | 96.9589 | 95.0877 | 98.9051 | 82.3832 | 813 | 42 | 813 | 9 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.3468 | 95.0887 | 99.7147 | 63.4324 | 697 | 36 | 699 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.2945 | 95.0894 | 99.6044 | 78.8532 | 6545 | 338 | 6546 | 26 | 3 | 11.5385 | |
| ltrigg-rtg1 | INDEL | * | HG002compoundhet | het | 96.0922 | 95.0904 | 97.1154 | 68.4751 | 3893 | 201 | 3939 | 117 | 62 | 52.9915 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.6283 | 95.0913 | 96.1713 | 57.6972 | 833 | 43 | 2537 | 101 | 95 | 94.0594 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.5329 | 95.0920 | 98.0180 | 79.6517 | 1085 | 56 | 1088 | 22 | 17 | 77.2727 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.4702 | 95.0930 | 99.9692 | 25.5353 | 6492 | 335 | 6501 | 2 | 1 | 50.0000 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.4077 | 95.0956 | 99.8350 | 48.2245 | 10742 | 554 | 19971 | 33 | 33 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | * | 88.5661 | 95.0964 | 82.8750 | 85.4707 | 11442 | 590 | 11300 | 2335 | 147 | 6.2955 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2533 | 95.0967 | 97.4383 | 65.3458 | 4228 | 218 | 4184 | 110 | 105 | 95.4545 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.5174 | 95.0980 | 97.9798 | 60.8696 | 97 | 5 | 97 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l150_m2_e1 | homalt | 96.7506 | 95.0980 | 98.4615 | 83.4746 | 194 | 10 | 192 | 3 | 1 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.6652 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.5019 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| 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 | |
| astatham-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5665 | 95.0980 | 96.0396 | 92.5296 | 97 | 5 | 97 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 91.5094 | 95.0980 | 88.1818 | 60.7143 | 97 | 5 | 97 | 13 | 8 | 61.5385 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.7794 | 95.0997 | 90.5697 | 78.5117 | 2814 | 145 | 2814 | 293 | 6 | 2.0478 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0062 | 95.1023 | 98.9878 | 50.0871 | 2835 | 146 | 2836 | 29 | 24 | 82.7586 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 95.1049 | 0.0000 | 0.0000 | 272 | 14 | 0 | 0 | 0 | ||
| dgrover-gatk | INDEL | I6_15 | map_siren | het | 96.7972 | 95.1049 | 98.5507 | 86.9194 | 136 | 7 | 136 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.7129 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| gduggal-bwavard | INDEL | I6_15 | map_siren | het | 76.8135 | 95.1049 | 64.4231 | 86.2252 | 136 | 7 | 134 | 74 | 64 | 86.4865 | |
| bgallagher-sentieon | INDEL | I6_15 | map_siren | het | 96.7972 | 95.1049 | 98.5507 | 86.5103 | 136 | 7 | 136 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.5171 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.0227 | 95.1074 | 67.5916 | 78.7307 | 43466 | 2236 | 43994 | 21094 | 684 | 3.2426 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.0227 | 95.1074 | 67.5916 | 78.7307 | 43466 | 2236 | 43994 | 21094 | 684 | 3.2426 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l250_m2_e0 | * | 97.2222 | 95.1087 | 99.4318 | 94.0999 | 175 | 9 | 175 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.8525 | 95.1101 | 98.6600 | 66.4833 | 2937 | 151 | 2945 | 40 | 2 | 5.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 69.8130 | 95.1115 | 55.1450 | 68.5922 | 28990 | 1490 | 29105 | 23674 | 22789 | 96.2617 | |
| gduggal-bwavard | INDEL | * | map_l125_m1_e0 | * | 91.5570 | 95.1115 | 88.2586 | 89.4208 | 2004 | 103 | 2007 | 267 | 71 | 26.5918 | |
| ltrigg-rtg1 | SNP | * | map_l150_m0_e0 | het | 97.3195 | 95.1134 | 99.6305 | 65.8586 | 7552 | 388 | 7549 | 28 | 6 | 21.4286 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.3029 | 95.1201 | 97.5155 | 59.3306 | 1267 | 65 | 1256 | 32 | 19 | 59.3750 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 88.0775 | 95.1208 | 82.0053 | 38.4898 | 2047 | 105 | 3427 | 752 | 750 | 99.7340 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.6277 | 95.1220 | 98.1818 | 88.6246 | 234 | 12 | 216 | 4 | 2 | 50.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.1429 | 95.1220 | 83.8710 | 76.2755 | 78 | 4 | 78 | 15 | 15 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.1734 | 95.1220 | 85.7143 | 76.3021 | 78 | 4 | 78 | 13 | 13 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 83.8710 | 95.1220 | 75.0000 | 87.3786 | 39 | 2 | 39 | 13 | 13 | 100.0000 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.1220 | 95.1220 | 95.1220 | 91.5638 | 39 | 2 | 39 | 2 | 1 | 50.0000 | |
| raldana-dualsentieon | SNP | * | map_l100_m1_e0 | hetalt | 96.2963 | 95.1220 | 97.5000 | 65.5172 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.2963 | 95.1220 | 97.5000 | 91.1700 | 39 | 2 | 39 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | SNP | tv | map_l100_m1_e0 | hetalt | 96.2963 | 95.1220 | 97.5000 | 65.5172 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.8866 | 95.1220 | 98.7179 | 46.1140 | 312 | 16 | 308 | 4 | 4 | 100.0000 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 75.7282 | 95.1220 | 62.9032 | 93.1188 | 39 | 2 | 39 | 23 | 11 | 47.8261 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.2963 | 95.1220 | 97.5000 | 92.3225 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.5000 | 95.1220 | 100.0000 | 91.7895 | 39 | 2 | 39 | 0 | 0 | ||
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.4901 | 95.1220 | 90.0000 | 74.9304 | 78 | 4 | 81 | 9 | 9 | 100.0000 | |