PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9151-9200 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | tv | map_l100_m0_e0 | het | 91.9563 | 98.9477 | 85.8877 | 83.2329 | 7146 | 76 | 7145 | 1174 | 61 | 5.1959 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.2944 | 90.1145 | 92.5056 | 71.8602 | 866 | 95 | 827 | 67 | 61 | 91.0448 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | * | 97.5355 | 96.5031 | 98.5902 | 69.5601 | 6154 | 223 | 6154 | 88 | 61 | 69.3182 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9006 | 91.1550 | 92.6585 | 71.5146 | 876 | 85 | 833 | 66 | 61 | 92.4242 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.8124 | 95.6628 | 97.9899 | 63.3939 | 3132 | 142 | 3120 | 64 | 61 | 95.3125 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8650 | 94.2920 | 97.4914 | 60.1243 | 2577 | 156 | 2565 | 66 | 61 | 92.4242 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 23.6905 | 15.0376 | 55.7971 | 50.3597 | 20 | 113 | 77 | 61 | 61 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 51.9110 | 37.2480 | 85.6132 | 63.2900 | 425 | 716 | 363 | 61 | 61 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | map_l100_m1_e0 | het | 86.8689 | 77.3061 | 99.1314 | 82.6916 | 23147 | 6795 | 23169 | 203 | 61 | 30.0493 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.8503 | 89.1304 | 82.8031 | 86.0652 | 984 | 120 | 963 | 200 | 61 | 30.5000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | * | 65.6309 | 53.5565 | 84.7345 | 81.1195 | 384 | 333 | 383 | 69 | 61 | 88.4058 | |
| qzeng-custom | SNP | tv | map_l100_m2_e0 | homalt | 87.6918 | 78.6086 | 99.1482 | 62.9624 | 7243 | 1971 | 7217 | 62 | 61 | 98.3871 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.3297 | 92.5249 | 84.4985 | 51.0052 | 557 | 45 | 556 | 102 | 61 | 59.8039 | |
| qzeng-custom | INDEL | I1_5 | HG002complexvar | homalt | 99.1245 | 98.9887 | 99.2607 | 46.5706 | 13312 | 136 | 13292 | 99 | 61 | 61.6162 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.6238 | 92.9702 | 96.3373 | 84.5241 | 2526 | 191 | 2525 | 96 | 61 | 63.5417 | |
| ndellapenna-hhga | SNP | * | map_l100_m1_e0 | * | 99.3352 | 98.8536 | 99.8215 | 61.7229 | 71573 | 830 | 71575 | 128 | 61 | 47.6562 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 94.3510 | 97.7144 | 91.2114 | 71.0965 | 5002 | 117 | 5376 | 518 | 61 | 11.7761 | |
| ghariani-varprowl | INDEL | * | map_l100_m0_e0 | het | 89.7886 | 97.7473 | 83.0283 | 91.0144 | 998 | 23 | 998 | 204 | 61 | 29.9020 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 50.5051 | 47.7707 | 53.5714 | 69.8925 | 75 | 82 | 75 | 65 | 61 | 93.8462 | |
| ghariani-varprowl | INDEL | D1_5 | segdup | het | 92.8475 | 99.4220 | 87.0886 | 96.1448 | 688 | 4 | 688 | 102 | 61 | 59.8039 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.1553 | 85.1190 | 68.8995 | 75.1486 | 143 | 25 | 144 | 65 | 61 | 93.8462 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.6127 | 99.7743 | 97.4780 | 44.0701 | 3978 | 9 | 3981 | 103 | 61 | 59.2233 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.7723 | 96.7851 | 94.7804 | 58.3362 | 1144 | 38 | 1144 | 63 | 61 | 96.8254 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 55.2980 | 100.0000 | 38.2151 | 88.1796 | 1 | 0 | 167 | 270 | 61 | 22.5926 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 32.2896 | 88.3995 | 0 | 0 | 165 | 346 | 61 | 17.6301 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 32.2896 | 88.3995 | 0 | 0 | 165 | 346 | 61 | 17.6301 | |
| gduggal-snapfb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 52.4956 | 98.0106 | 35.8482 | 76.1642 | 2956 | 60 | 3022 | 5408 | 61 | 1.1280 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 65.8825 | 97.2660 | 49.8107 | 91.6259 | 925 | 26 | 921 | 928 | 61 | 6.5733 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 55.2770 | 84.4907 | 41.0749 | 86.9620 | 1095 | 201 | 1070 | 1535 | 61 | 3.9739 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 76.8434 | 94.7617 | 64.6239 | 86.6785 | 4016 | 222 | 3986 | 2182 | 61 | 2.7956 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | het | 81.6091 | 95.8895 | 71.0309 | 92.1854 | 2846 | 122 | 2832 | 1155 | 61 | 5.2814 | |
| rpoplin-dv42 | SNP | tv | map_l150_m1_e0 | * | 98.9126 | 98.7903 | 99.0352 | 73.1204 | 10780 | 132 | 10778 | 105 | 61 | 58.0952 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e0 | * | 98.9506 | 98.8287 | 99.0728 | 74.8529 | 11222 | 133 | 11220 | 105 | 61 | 58.0952 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e1 | * | 98.9641 | 98.8437 | 99.0847 | 74.8658 | 11369 | 133 | 11367 | 105 | 61 | 58.0952 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.7788 | 88.1157 | 97.9631 | 52.0232 | 3077 | 415 | 3078 | 64 | 61 | 95.3125 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | * | 99.6493 | 99.5895 | 99.7091 | 40.7188 | 25716 | 106 | 25707 | 75 | 61 | 81.3333 | |
| ckim-vqsr | INDEL | * | HG002complexvar | het | 99.5556 | 99.3270 | 99.7852 | 57.9433 | 45901 | 311 | 45518 | 98 | 61 | 62.2449 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9234 | 99.0868 | 91.0959 | 82.4814 | 868 | 8 | 665 | 65 | 61 | 93.8462 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 65.9384 | 80.0000 | 56.0811 | 49.8305 | 108 | 27 | 83 | 65 | 61 | 93.8462 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.7285 | 85.5171 | 98.9129 | 30.0899 | 6135 | 1039 | 6460 | 71 | 61 | 85.9155 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.8806 | 94.6889 | 95.0731 | 64.4402 | 1248 | 70 | 1235 | 64 | 61 | 95.3125 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 83.4646 | 98.7578 | 72.2727 | 35.4839 | 159 | 2 | 159 | 61 | 61 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.9986 | 97.0872 | 98.9273 | 73.5231 | 6233 | 187 | 7378 | 80 | 61 | 76.2500 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.9986 | 97.0872 | 98.9273 | 73.5231 | 6233 | 187 | 7378 | 80 | 61 | 76.2500 | |
| anovak-vg | INDEL | * | map_l250_m1_e0 | * | 66.8127 | 69.1803 | 64.6018 | 96.2450 | 211 | 94 | 219 | 120 | 61 | 50.8333 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 22.4849 | 18.3099 | 29.1262 | 29.9320 | 26 | 116 | 30 | 73 | 61 | 83.5616 | |
| astatham-gatk | SNP | tv | * | * | 99.5449 | 99.1184 | 99.9751 | 22.0764 | 961141 | 8549 | 961059 | 239 | 61 | 25.5230 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.7606 | 94.4613 | 95.0617 | 64.4054 | 1245 | 73 | 1232 | 64 | 61 | 95.3125 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 83.4646 | 98.7578 | 72.2727 | 36.0465 | 159 | 2 | 159 | 61 | 61 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 97.3224 | 97.0558 | 97.5904 | 32.2861 | 3791 | 115 | 3807 | 94 | 61 | 64.8936 | |