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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8051-8100 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.0704 | 96.0794 | 92.1437 | 38.7632 | 8038 | 328 | 10849 | 925 | 888 | 96.0000 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | het | 98.4376 | 97.2165 | 99.6897 | 74.3678 | 8033 | 230 | 8033 | 25 | 12 | 48.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2930 | 95.5286 | 99.1239 | 61.6524 | 8033 | 376 | 8033 | 71 | 62 | 87.3239 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | * | 93.3379 | 91.5109 | 95.2392 | 35.4681 | 8031 | 745 | 8042 | 402 | 334 | 83.0846 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.7152 | 96.0167 | 97.4238 | 54.7331 | 8027 | 333 | 8055 | 213 | 202 | 94.8357 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.7152 | 96.0167 | 97.4238 | 54.7331 | 8027 | 333 | 8055 | 213 | 202 | 94.8357 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4023 | 95.4216 | 99.4669 | 60.8921 | 8024 | 385 | 8023 | 43 | 32 | 74.4186 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.2809 | 95.5574 | 91.1103 | 49.1422 | 8023 | 373 | 7779 | 759 | 657 | 86.5613 | |
| astatham-gatk | SNP | tv | map_l125_m2_e1 | het | 86.2148 | 76.0068 | 99.5902 | 81.0461 | 8021 | 2532 | 8019 | 33 | 8 | 24.2424 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002compoundhet | * | 93.1478 | 91.3856 | 94.9793 | 37.0668 | 8020 | 756 | 8021 | 424 | 422 | 99.5283 | |
| egarrison-hhga | INDEL | I6_15 | HG002compoundhet | * | 93.4351 | 91.3742 | 95.5910 | 34.6214 | 8019 | 757 | 8022 | 370 | 313 | 84.5946 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2525 | 95.3621 | 99.2194 | 61.6689 | 8019 | 390 | 8008 | 63 | 59 | 93.6508 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2451 | 95.3502 | 99.2167 | 55.7798 | 8018 | 391 | 8107 | 64 | 58 | 90.6250 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | het | 85.5513 | 76.7765 | 96.5908 | 86.8303 | 8017 | 2425 | 8018 | 283 | 230 | 81.2721 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 92.5939 | 86.2091 | 100.0000 | 89.7909 | 8014 | 1282 | 83 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.1948 | 95.7925 | 94.6045 | 46.7027 | 8014 | 352 | 8013 | 457 | 181 | 39.6061 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2264 | 95.2551 | 99.2811 | 61.5901 | 8010 | 399 | 8010 | 58 | 49 | 84.4828 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.3116 | 95.7208 | 92.9434 | 47.3511 | 8008 | 358 | 8008 | 608 | 274 | 45.0658 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6132 | 95.1837 | 98.0864 | 57.9273 | 8004 | 405 | 7996 | 156 | 101 | 64.7436 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2713 | 95.1718 | 99.4655 | 60.8421 | 8003 | 406 | 8002 | 43 | 27 | 62.7907 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2001 | 95.1599 | 99.3297 | 61.6253 | 8002 | 407 | 8002 | 54 | 47 | 87.0370 | |
| asubramanian-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.0480 | 91.1691 | 95.0059 | 37.8731 | 8001 | 775 | 8009 | 421 | 405 | 96.1995 | |
| gduggal-bwaplat | INDEL | I1_5 | * | hetalt | 82.6726 | 71.4515 | 98.0748 | 76.8337 | 7999 | 3196 | 7998 | 157 | 152 | 96.8153 | |
| gduggal-snapfb | INDEL | D1_5 | * | hetalt | 84.1984 | 78.0771 | 91.3611 | 79.2100 | 7999 | 2246 | 3289 | 311 | 140 | 45.0161 | |
| cchapple-custom | INDEL | I6_15 | * | hetalt | 0.0000 | 93.4978 | 0.0000 | 0.0000 | 7995 | 556 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.3208 | 43.7811 | 51.4831 | 46.1266 | 7994 | 10265 | 7984 | 7524 | 7396 | 98.2988 | |
| dgrover-gatk | INDEL | I6_15 | * | hetalt | 96.6039 | 93.4744 | 99.9502 | 38.7907 | 7993 | 558 | 8034 | 4 | 4 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | * | hetalt | 96.6097 | 93.4744 | 99.9627 | 39.2455 | 7993 | 558 | 8033 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2193 | 95.0054 | 99.5389 | 60.9375 | 7989 | 420 | 7988 | 37 | 23 | 62.1622 | |
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | hetalt | 83.2751 | 71.4771 | 99.7378 | 70.8280 | 7989 | 3188 | 7987 | 21 | 17 | 80.9524 | |
| cchapple-custom | INDEL | I6_15 | HG002compoundhet | hetalt | 0.0000 | 93.5106 | 0.0000 | 0.0000 | 7983 | 554 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | hetalt | 86.5070 | 78.1323 | 96.8926 | 76.7383 | 7982 | 2234 | 3274 | 105 | 84 | 80.0000 | |
| dgrover-gatk | INDEL | I6_15 | HG002compoundhet | hetalt | 96.6156 | 93.4637 | 99.9875 | 29.8618 | 7979 | 558 | 8020 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002compoundhet | hetalt | 96.6215 | 93.4637 | 100.0000 | 30.1298 | 7979 | 558 | 8019 | 0 | 0 | ||
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.2874 | 71.9726 | 85.8170 | 51.6431 | 7976 | 3106 | 8120 | 1342 | 1151 | 85.7675 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 62.8790 | 57.8527 | 68.8617 | 41.8554 | 7975 | 5810 | 7937 | 3589 | 3504 | 97.6317 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 55.4286 | 49.6853 | 62.6733 | 53.8178 | 7973 | 8074 | 8093 | 4820 | 3647 | 75.6639 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.8870 | 94.9500 | 92.8476 | 48.1847 | 7972 | 424 | 15305 | 1179 | 918 | 77.8626 | |
| astatham-gatk | INDEL | I6_15 | * | hetalt | 96.4480 | 93.1938 | 99.9376 | 38.5683 | 7969 | 582 | 8010 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4101 | 94.7437 | 98.1362 | 57.6003 | 7967 | 442 | 10057 | 191 | 176 | 92.1466 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9509 | 94.7199 | 99.2895 | 61.7800 | 7965 | 444 | 7965 | 57 | 48 | 84.2105 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m0_e0 | het | 98.0426 | 96.3815 | 99.7620 | 61.0832 | 7964 | 299 | 7964 | 19 | 3 | 15.7895 | |
| hfeng-pmm3 | INDEL | I6_15 | * | hetalt | 96.4340 | 93.1353 | 99.9750 | 38.6184 | 7964 | 587 | 8004 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 80.6222 | 79.0628 | 82.2442 | 83.6336 | 7964 | 2109 | 8143 | 1758 | 1536 | 87.3720 | |
| hfeng-pmm1 | INDEL | I6_15 | * | hetalt | 96.4031 | 93.0885 | 99.9625 | 39.0201 | 7960 | 591 | 8000 | 3 | 3 | 100.0000 | |
| qzeng-custom | SNP | * | map_l150_m2_e0 | homalt | 80.6830 | 68.0315 | 99.1149 | 73.2795 | 7959 | 3740 | 7839 | 70 | 70 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | * | 94.7100 | 90.6791 | 99.1159 | 32.9210 | 7958 | 818 | 7848 | 70 | 64 | 91.4286 | |
| astatham-gatk | INDEL | I6_15 | HG002compoundhet | hetalt | 96.4594 | 93.1826 | 99.9750 | 29.7620 | 7955 | 582 | 7996 | 2 | 2 | 100.0000 | |