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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4851-4900 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | * | map_l100_m2_e0 | * | 91.3432 | 89.7373 | 93.0076 | 85.5055 | 3314 | 379 | 3312 | 249 | 199 | 79.9197 | |
| jpowers-varprowl | INDEL | * | map_l100_m2_e1 | het | 91.5148 | 93.2138 | 89.8765 | 87.3477 | 2184 | 159 | 2184 | 246 | 199 | 80.8943 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 62.4468 | 81.4917 | 50.6173 | 72.8005 | 295 | 67 | 205 | 200 | 199 | 99.5000 | |
| qzeng-custom | SNP | ti | map_l250_m1_e0 | * | 73.1661 | 60.6683 | 92.1490 | 95.6157 | 2778 | 1801 | 2770 | 236 | 199 | 84.3220 | |
| qzeng-custom | INDEL | D6_15 | HG002compoundhet | homalt | 15.8393 | 95.8333 | 8.6331 | 43.0328 | 23 | 1 | 24 | 254 | 199 | 78.3465 | |
| ndellapenna-hhga | INDEL | D16_PLUS | HG002compoundhet | het | 77.8675 | 83.4568 | 72.9798 | 46.7026 | 338 | 67 | 578 | 214 | 199 | 92.9907 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | het | 96.9234 | 98.7821 | 95.1334 | 83.0282 | 20115 | 248 | 20115 | 1029 | 199 | 19.3392 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 87.4099 | 82.2078 | 93.3149 | 53.2942 | 3031 | 656 | 3043 | 218 | 199 | 91.2844 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.7047 | 98.0586 | 97.3534 | 62.7778 | 8233 | 163 | 8203 | 223 | 199 | 89.2377 | |
| jlack-gatk | INDEL | D6_15 | * | homalt | 98.1988 | 99.5416 | 96.8918 | 51.5867 | 6297 | 29 | 6297 | 202 | 199 | 98.5149 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0821 | 99.3893 | 94.8796 | 55.1755 | 3743 | 23 | 3743 | 202 | 199 | 98.5149 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0821 | 99.3893 | 94.8796 | 55.1755 | 3743 | 23 | 3743 | 202 | 199 | 98.5149 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7827 | 99.6639 | 97.9169 | 51.5925 | 9489 | 32 | 9495 | 202 | 199 | 98.5149 | |
| rpoplin-dv42 | SNP | * | map_l100_m2_e1 | * | 99.4091 | 99.2775 | 99.5411 | 65.1919 | 74197 | 540 | 74186 | 342 | 199 | 58.1871 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 37.7753 | 27.5229 | 60.2000 | 50.3476 | 120 | 316 | 301 | 199 | 199 | 100.0000 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | * | 90.3682 | 92.8381 | 88.0262 | 88.0620 | 3487 | 269 | 3492 | 475 | 199 | 41.8947 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | het | 96.9127 | 98.7732 | 95.1210 | 82.9549 | 19886 | 247 | 19886 | 1020 | 198 | 19.4118 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | * | 92.9211 | 95.6915 | 90.3065 | 76.7821 | 20833 | 938 | 20654 | 2217 | 198 | 8.9310 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 84.8725 | 80.8690 | 89.2931 | 75.5803 | 4802 | 1136 | 2602 | 312 | 198 | 63.4615 | |
| gduggal-snapvard | SNP | tv | map_siren | het | 94.6657 | 97.2841 | 92.1846 | 72.3745 | 27832 | 777 | 27719 | 2350 | 198 | 8.4255 | |
| ghariani-varprowl | INDEL | * | map_l100_m2_e0 | het | 90.5891 | 98.0928 | 84.1518 | 89.9495 | 2263 | 44 | 2262 | 426 | 198 | 46.4789 | |
| jpowers-varprowl | SNP | ti | map_siren | het | 98.2302 | 97.8231 | 98.6406 | 61.2920 | 61024 | 1358 | 61026 | 841 | 198 | 23.5434 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.2936 | 79.9879 | 72.9255 | 50.4089 | 1323 | 331 | 1371 | 509 | 198 | 38.8998 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.6996 | 85.4251 | 85.9760 | 54.8462 | 633 | 108 | 1502 | 245 | 198 | 80.8163 | |
| rpoplin-dv42 | SNP | * | map_l100_m2_e0 | * | 99.4070 | 99.2740 | 99.5404 | 65.1757 | 73427 | 537 | 73416 | 339 | 198 | 58.4071 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | homalt | 86.3667 | 98.3965 | 76.9580 | 80.9842 | 675 | 11 | 678 | 203 | 198 | 97.5369 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.3982 | 98.2071 | 92.7456 | 62.2313 | 2684 | 49 | 2672 | 209 | 198 | 94.7368 | |
| jlack-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 19.5122 | 100.0000 | 10.8108 | 46.5060 | 24 | 0 | 24 | 198 | 197 | 99.4949 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.5494 | 92.7996 | 96.3665 | 60.4456 | 5645 | 438 | 5543 | 209 | 197 | 94.2584 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.3666 | 30.7174 | 86.7262 | 43.9252 | 1460 | 3293 | 1457 | 223 | 197 | 88.3408 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 71.3980 | 62.1268 | 83.9216 | 50.4662 | 1852 | 1129 | 1070 | 205 | 197 | 96.0976 | |
| ghariani-varprowl | SNP | * | map_l150_m1_e0 | het | 96.8491 | 98.7368 | 95.0321 | 81.8341 | 19072 | 244 | 19072 | 997 | 197 | 19.7593 | |
| gduggal-bwavard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6687 | 97.3228 | 98.0171 | 65.4411 | 26937 | 741 | 26644 | 539 | 197 | 36.5492 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.4990 | 98.1160 | 98.8851 | 46.7540 | 17915 | 344 | 17916 | 202 | 197 | 97.5248 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 53.6324 | 61.8056 | 47.3684 | 65.3285 | 178 | 110 | 180 | 200 | 197 | 98.5000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.4140 | 30.7174 | 87.0736 | 43.4900 | 1460 | 3293 | 1455 | 216 | 197 | 91.2037 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9102 | 91.2700 | 94.6103 | 54.6326 | 3586 | 343 | 3581 | 204 | 197 | 96.5686 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e0 | homalt | 77.0808 | 73.9096 | 80.5363 | 81.0585 | 932 | 329 | 931 | 225 | 197 | 87.5556 | |
| ndellapenna-hhga | SNP | * | HG002compoundhet | homalt | 98.7381 | 99.4064 | 98.0787 | 35.7852 | 10718 | 64 | 10720 | 210 | 197 | 93.8095 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002complexvar | het | 92.6198 | 92.8205 | 92.4200 | 56.3998 | 2896 | 224 | 2975 | 244 | 197 | 80.7377 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.9858 | 99.8938 | 98.0942 | 44.9243 | 10346 | 11 | 10346 | 201 | 197 | 98.0100 | |
| qzeng-custom | SNP | ti | map_l250_m2_e1 | het | 74.8760 | 64.0800 | 90.0468 | 96.4938 | 2114 | 1185 | 2117 | 234 | 196 | 83.7607 | |
| raldana-dualsentieon | INDEL | * | HG002complexvar | * | 98.9594 | 98.2323 | 99.6974 | 57.2556 | 75578 | 1360 | 75441 | 229 | 196 | 85.5895 | |
| mlin-fermikit | INDEL | * | map_l100_m1_e0 | homalt | 76.5877 | 73.3496 | 80.1248 | 79.4844 | 900 | 327 | 899 | 223 | 196 | 87.8924 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.5216 | 75.5967 | 90.8430 | 68.5420 | 2692 | 869 | 2748 | 277 | 196 | 70.7581 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.5865 | 98.1950 | 77.4326 | 84.5229 | 14308 | 263 | 14380 | 4191 | 196 | 4.6767 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.5865 | 98.1950 | 77.4326 | 84.5229 | 14308 | 263 | 14380 | 4191 | 196 | 4.6767 | |
| ciseli-custom | INDEL | D6_15 | HG002complexvar | het | 69.9812 | 65.9506 | 74.5366 | 56.4774 | 2057 | 1062 | 2131 | 728 | 196 | 26.9231 | |
| ciseli-custom | SNP | ti | map_l250_m1_e0 | * | 70.0357 | 66.4337 | 74.0506 | 91.7565 | 3042 | 1537 | 3042 | 1066 | 196 | 18.3865 | |
| ciseli-custom | SNP | ti | map_l250_m2_e1 | homalt | 82.2049 | 80.4740 | 84.0118 | 87.5404 | 1426 | 346 | 1424 | 271 | 196 | 72.3247 | |