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.
EntryTypeSubtypeSubsetGenotypeF-scoreRecallPrecisionFrac_NATruth TPTruth FN Query TPQuery FPFP gt% FP ma
83451-83500 / 86044 show all
eyeh-varpipeINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
49.9555
43.2887
59.0497
58.0143
21642835215014911450
97.2502
qzeng-customSNP*map_l250_m2_e0*
75.7461
64.0330
92.7037
95.4455
504928365006394328
83.2487
gduggal-snapfbINDELD6_15*hetalt
74.5835
65.2679
87.0010
49.2731
53352839850127126
99.2126
qzeng-customINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_mergedhetalt
88.1620
79.3519
99.1726
31.2754
10922284225172118
85.7143
ciseli-customSNP*map_l150_m0_e0het
70.4472
64.1940
78.0503
88.1313
509728435092143247
3.2821
eyeh-varpipeINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhet
87.7417
84.0451
91.7784
50.9056
1497628432122119011763
92.7407
gduggal-snapvardINDELD6_15lowcmp_AllRepeats_51to200bp_gt95identity_merged*
34.3818
27.5134
45.8204
41.0718
10812848118414001153
82.3571
gduggal-snapvardINDELD1_5lowcmp_SimpleRepeat_quadTR_11to50*
71.3186
75.9474
67.2215
47.6957
901828561223759674608
77.2247
gduggal-bwafbINDELD1_5**
98.5809
98.0538
99.1138
59.5290
14388928561447271294903
69.7836
qzeng-customSNP*map_l250_m2_e1*
75.9076
64.2294
92.7764
95.4610
513028575086396330
83.3333
mlin-fermikitINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged*
86.9120
84.3420
89.6435
36.7917
1540028591539017781740
97.8628
gduggal-snapfbINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhomalt
91.4953
90.7025
92.3021
74.5517
2790128602789023262006
86.2425
gduggal-snapvardINDELD6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhomalt
17.3176
9.5419
93.5644
56.5591
30228631891313
100.0000
ltrigg-rtg1INDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
97.3301
95.6145
99.1085
62.8544
62485286662808565237
41.9469
ltrigg-rtg1INDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
97.3301
95.6145
99.1085
62.8544
62485286662808565237
41.9469
ciseli-customSNPtvmap_l100_m0_e0*
78.9086
74.1158
84.3641
75.9006
8215286982121522391
25.6899
ckim-vqsrSNPtimap_l250_m2_e0*
59.5430
42.6717
98.4793
97.0358
213728712137330
0.0000
anovak-vgINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331*
51.5950
42.4685
65.7179
59.2998
2123287621011096789
71.9891
anovak-vgINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
51.5950
42.4685
65.7179
59.2998
2123287621011096789
71.9891
jpowers-varprowlINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331*
45.9086
42.3685
50.0943
72.1654
21182881212521172097
99.0553
jpowers-varprowlINDELD16_PLUSlowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
45.9086
42.3685
50.0943
72.1654
21182881212521172097
99.0553
gduggal-bwaplatSNPtimap_l250_m1_e0*
54.0102
37.0605
99.5311
97.1343
16972882169882
25.0000
ghariani-varprowlINDELI16_PLUS**
60.9624
54.8063
68.6764
63.4694
34952882349715951576
98.8088
gduggal-bwaplatINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged*
67.3062
52.6056
93.4092
74.8938
32002883320322695
42.0354
anovak-vgSNPtimap_l150_m2_e0*
79.7989
85.9302
74.4843
79.9053
1762628861747759871363
22.7660
anovak-vgSNPtimap_l100_m1_e0het
80.6718
90.3580
72.8613
71.8309
2705528872684599992187
21.8722
ckim-isaacINDELI1_5HG002complexvar*
93.9569
91.3347
96.7341
48.5479
304722891304191027555
54.0409
gduggal-snapvardINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331hetalt
0.0000
50.9584
0.0000
0.0000
30042891000
gduggal-snapvardINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhetalt
0.0000
50.9584
0.0000
0.0000
30042891000
ckim-isaacSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331*
94.4491
90.7138
98.5051
60.8883
28251289228401431172
39.9072
ckim-isaacSNPtilowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
94.4491
90.7138
98.5051
60.8883
28251289228401431172
39.9072
gduggal-bwafbINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_mergedhet
96.1730
94.0088
98.4392
67.8764
45379289260357957752
78.5789
astatham-gatkSNPtimap_l100_m0_e0het
88.3269
79.3034
99.6674
77.0849
110892894110863716
43.2432
anovak-vgSNPtimap_l150_m2_e1*
79.8681
86.0107
74.5445
79.9452
1782428991767360351369
22.6843
ckim-vqsrSNPtimap_l250_m2_e1*
59.7117
42.8487
98.4608
97.0448
217529012175340
0.0000
qzeng-customSNPtimap_l125_m0_e0het
76.7738
64.8796
94.0081
91.3630
536129025350341285
83.5777
qzeng-customINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhetalt
88.1323
79.3116
99.1606
35.6652
11129290325992219
86.3636
ckim-dragenINDEL***
99.1359
99.1574
99.1143
60.3466
341639290334130330502010
65.9016
gduggal-snapplatINDELI1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_mergedhetalt
53.5363
39.1660
84.5632
59.4976
186929031868341287
84.1642
mlin-fermikitINDELD6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331hetalt
77.9120
63.9658
99.6350
31.9608
5155290451861918
94.7368
mlin-fermikitINDELD6_15lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_mergedhetalt
77.9120
63.9658
99.6350
31.9608
5155290451861918
94.7368
mlin-fermikitINDELD6_15HG002compoundhethetalt
78.2401
64.3602
99.7528
23.4532
5246290552451313
100.0000
ckim-isaacSNPtvmap_l100_m0_e0het
74.7468
59.7757
99.7229
73.2042
431729054319123
25.0000
jmaeng-gatkSNPtimap_l100_m0_e0homalt
77.0009
62.6190
99.9589
69.2803
48682906486822
100.0000
mlin-fermikitINDELD6_15*hetalt
78.2531
64.4238
99.6427
35.0794
5266290852981918
94.7368
gduggal-snapfbINDELD1_5lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged*
87.5291
86.9258
88.1409
52.6080
1934129092014927111465
54.0391
mlin-fermikitSNPtiHG002complexvarhomalt
98.3813
98.4958
98.2669
18.8239
190554291019057233613261
97.0247
ckim-gatkINDEL***
99.2271
99.1551
99.2992
60.7185
341631291134149224101553
64.4398
jpowers-varprowlINDELD16_PLUS**
60.4248
56.9575
64.3415
68.1361
38642920387421472111
98.3232
gduggal-snapfbINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_mergedhetalt
81.2553
73.6695
90.5826
44.2627
818129242068215132
61.3953