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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75851-75900 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 23.8908 | 17.7515 | 36.5217 | 59.5070 | 30 | 139 | 42 | 73 | 70 | 95.8904 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6077 | 98.1214 | 99.0988 | 41.2220 | 24079 | 461 | 24081 | 219 | 210 | 95.8904 | |
| mlin-fermikit | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 73.6558 | 85.1238 | 64.9109 | 67.0798 | 3439 | 601 | 3241 | 1752 | 1680 | 95.8904 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | * | 95.2373 | 93.5902 | 96.9436 | 67.0365 | 11564 | 792 | 11577 | 365 | 350 | 95.8904 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 85.7951 | 83.9912 | 87.6782 | 74.5242 | 3043 | 580 | 3814 | 536 | 514 | 95.8955 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 89.5152 | 98.0903 | 82.3188 | 67.4835 | 565 | 11 | 568 | 122 | 117 | 95.9016 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 81.8508 | 71.2279 | 96.1979 | 32.2123 | 2332 | 942 | 6806 | 269 | 258 | 95.9108 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.6667 | 97.6378 | 71.6763 | 51.1299 | 124 | 3 | 124 | 49 | 47 | 95.9184 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 90.1750 | 93.3148 | 87.2396 | 48.1081 | 335 | 24 | 335 | 49 | 47 | 95.9184 | |
| gduggal-bwavard | SNP | * | segdup | homalt | 98.6646 | 97.8125 | 99.5315 | 88.9251 | 10508 | 235 | 10411 | 49 | 47 | 95.9184 | |
| eyeh-varpipe | SNP | ti | * | hetalt | 99.5363 | 99.8282 | 99.2460 | 38.4448 | 581 | 1 | 6450 | 49 | 47 | 95.9184 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7292 | 95.8398 | 80.8843 | 58.8109 | 622 | 27 | 622 | 147 | 141 | 95.9184 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 93.8149 | 89.8021 | 98.2032 | 50.1554 | 2677 | 304 | 2678 | 49 | 47 | 95.9184 | |
| rpoplin-dv42 | INDEL | D6_15 | * | het | 97.5270 | 99.0079 | 96.0896 | 61.5469 | 11477 | 115 | 11451 | 466 | 447 | 95.9227 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 73.1919 | 91.6667 | 60.9150 | 62.8898 | 1221 | 111 | 1225 | 786 | 754 | 95.9288 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 29.6749 | 20.1610 | 56.1914 | 69.4731 | 601 | 2380 | 599 | 467 | 448 | 95.9315 | |
| jli-custom | INDEL | * | HG002compoundhet | * | 95.6209 | 94.1822 | 97.1042 | 61.3856 | 28217 | 1743 | 28100 | 838 | 804 | 95.9427 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 75.4208 | 86.9067 | 66.6165 | 52.9703 | 531 | 80 | 443 | 222 | 213 | 95.9459 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 50.6627 | 34.2063 | 97.6335 | 41.8233 | 2769 | 5326 | 3053 | 74 | 71 | 95.9459 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.8454 | 79.2480 | 91.2936 | 44.8269 | 1665 | 436 | 2590 | 247 | 237 | 95.9514 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 62.8725 | 52.4099 | 78.5542 | 50.1920 | 1033 | 938 | 1630 | 445 | 427 | 95.9551 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 62.8725 | 52.4099 | 78.5542 | 50.1920 | 1033 | 938 | 1630 | 445 | 427 | 95.9551 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | hetalt | 58.5449 | 41.7091 | 98.1717 | 64.4031 | 4261 | 5955 | 5316 | 99 | 95 | 95.9596 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | homalt | 89.0670 | 95.2951 | 83.6029 | 66.2028 | 1114 | 55 | 1137 | 223 | 214 | 95.9641 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 29.3005 | 21.5292 | 45.8515 | 79.6625 | 107 | 390 | 105 | 124 | 119 | 95.9677 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 49.3293 | 79.5367 | 35.7513 | 30.4087 | 206 | 53 | 207 | 372 | 357 | 95.9677 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6838 | 97.4223 | 97.9467 | 56.1751 | 36925 | 977 | 36731 | 770 | 739 | 95.9740 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.3846 | 71.4286 | 23.5174 | 34.4504 | 115 | 46 | 115 | 374 | 359 | 95.9893 | |
| mlin-fermikit | INDEL | D1_5 | * | * | 96.7247 | 95.7954 | 97.6723 | 56.1904 | 140575 | 6170 | 140399 | 3346 | 3212 | 95.9952 | |
| eyeh-varpipe | INDEL | * | * | * | 92.5779 | 91.3854 | 93.8021 | 63.3717 | 314861 | 29681 | 317111 | 20953 | 20114 | 95.9958 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 71.9101 | 94.2875 | 0 | 0 | 64 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | * | HG002complexvar | homalt | 99.7765 | 99.9223 | 99.6312 | 57.3581 | 27006 | 21 | 27016 | 100 | 96 | 96.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.1217 | 100.0000 | 96.3127 | 73.4013 | 653 | 0 | 653 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.4072 | 100.0000 | 89.4068 | 69.4696 | 211 | 0 | 211 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7781 | 99.9671 | 99.5898 | 57.9684 | 6070 | 2 | 6070 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6017 | 95.6643 | 99.6192 | 25.0742 | 6531 | 296 | 6540 | 25 | 24 | 96.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0769 | 99.5816 | 96.6171 | 61.4099 | 714 | 3 | 714 | 25 | 24 | 96.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5098 | 95.4885 | 99.6185 | 24.8854 | 6519 | 308 | 6528 | 25 | 24 | 96.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.4072 | 100.0000 | 89.4068 | 69.3904 | 211 | 0 | 211 | 25 | 24 | 96.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 93.9702 | 92.4431 | 95.5486 | 30.3243 | 1260 | 103 | 11269 | 525 | 504 | 96.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.3687 | 31.5895 | 80.4688 | 67.2634 | 157 | 340 | 103 | 25 | 24 | 96.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 68.0749 | 52.0749 | 98.2675 | 53.6013 | 1418 | 1305 | 1418 | 25 | 24 | 96.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9842 | 99.2753 | 98.6948 | 48.1764 | 9452 | 69 | 9452 | 125 | 120 | 96.0000 | |
| hfeng-pmm3 | SNP | * | HG002complexvar | homalt | 99.9822 | 99.9730 | 99.9913 | 19.9554 | 288496 | 78 | 288478 | 25 | 24 | 96.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1747 | 97.0673 | 99.3076 | 46.3948 | 10757 | 325 | 10757 | 75 | 72 | 96.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.1134 | 93.7764 | 88.5975 | 54.4652 | 1552 | 103 | 1554 | 200 | 192 | 96.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 69.4864 | 63.7097 | 76.4151 | 99.9162 | 79 | 45 | 81 | 25 | 24 | 96.0000 | |
| 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 | |
| ciseli-custom | INDEL | D6_15 | segdup | homalt | 75.0000 | 90.0000 | 64.2857 | 93.2757 | 45 | 5 | 45 | 25 | 24 | 96.0000 | |