PrecisionFDA
Truth Challenge

Engage and improve DNA test results with our community challenges

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
51-100 / 86044 show all
asubramanian-gatkSNP*map_sirenhet
78.4554
64.6317
99.8014
73.5808
58809321825880011733
28.2051
asubramanian-gatkSNP*map_l125_m2_e0*
47.7392
31.3764
99.7686
91.5938
146603206314657348
23.5294
ckim-isaacSNPti*het
98.7325
97.5284
99.9667
15.6908
125021431683125052541731
7.4341
asubramanian-gatkSNP*map_l125_m1_e0*
46.3852
30.2138
99.8032
91.3119
136953163213692276
22.2222
ckim-isaacSNPtv**
98.3371
96.7926
99.9317
18.3312
93859631102938905642418
65.1090
ciseli-customSNP**het
97.1375
98.3979
95.9090
22.9747
184358430017183723578367939
1.1982
anovak-vgINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
58.0405
54.1246
62.5672
55.8642
3537129980435582606019700
75.5948
anovak-vgINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
58.0405
54.1246
62.5672
55.8642
3537129980435582606019700
75.5948
jpowers-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
56.7953
54.2639
59.5745
64.3309
3546229889354202403523631
98.3191
jpowers-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
56.7953
54.2639
59.5745
64.3309
3546229889354202403523631
98.3191
eyeh-varpipeINDEL***
92.5779
91.3854
93.8021
63.3717
314861296813171112095320114
95.9958
mlin-fermikitSNP*map_l100_m2_e1*
72.9339
60.8681
90.9660
55.6863
45491292464548345173972
87.9345
gduggal-bwavardSNP***
99.3249
99.0431
99.6083
22.9016
3025405292293004827118173477
29.4237
mlin-fermikitSNP*map_l100_m2_e0*
72.7370
60.6281
90.8897
55.5979
44843291214483544943956
88.0285
mlin-fermikitSNP*map_l100_m1_e0*
72.2095
59.9657
90.7360
51.7425
43417289864340944323924
88.5379
gduggal-snapvardINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
57.9193
56.2153
59.7299
62.4801
3673528612565633813529523
77.4171
gduggal-snapvardINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
57.9193
56.2153
59.7299
62.4801
3673528612565633813529523
77.4171
mlin-fermikitSNPti*het
98.8419
97.7886
99.9182
14.5462
1253549283481253519102632
3.1189
gduggal-snapvardINDEL**homalt
86.7363
77.5779
98.3465
41.7135
97105280669962416751571
93.7910
gduggal-snapplatINDELD1_5**
84.8354
80.9636
89.0961
66.8161
11881027935139871171184621
26.9950
ckim-vqsrSNP*map_l100_m2_e1*
77.1389
63.0879
99.2421
83.6761
47150275874714236016
4.4444
jpowers-varprowlINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_merged*
73.0113
70.9589
75.1858
71.6028
6702027429669562209821721
98.2940
ckim-vqsrSNP*map_l100_m2_e0*
77.0107
62.9198
99.2344
83.7056
46538274264653035916
4.4568
anovak-vgINDEL*lowcmp_AllRepeats_lt51bp_gt95identity_merged*
72.8701
70.9790
74.8646
68.2103
6703927410796292673520426
76.4017
ciseli-customINDEL*HG002compoundhet*
10.2161
9.0332
11.7555
64.4950
27062725034482588322293
86.1299
ckim-vqsrSNP*map_l100_m1_e0*
76.6064
62.3814
99.2353
82.7403
45166272374515834814
4.0230
gduggal-bwavardINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
59.6850
58.5729
60.8400
68.6799
3827827073381542455822520
91.7013
gduggal-bwavardINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
59.6850
58.5729
60.8400
68.6799
3827827073381542455822520
91.7013
ghariani-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
59.6441
58.6663
60.6552
76.8269
3833927012382912483823765
95.6800
ghariani-varprowlINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
59.6441
58.6663
60.6552
76.8269
3833927012382912483823765
95.6800
asubramanian-gatkSNPtimap_l100_m2_e1*
62.6607
45.6542
99.8585
84.1129
2259226893225883212
37.5000
asubramanian-gatkSNPtimap_l100_m2_e0*
62.4314
45.4117
99.8563
84.1830
2223426727222303212
37.5000
asubramanian-gatkSNPtimap_l100_m1_e0*
61.7256
44.6642
99.8787
83.4799
2140826523214042610
38.4615
gduggal-snapplatSNP**het
98.7739
98.5851
98.9633
30.9812
1847092265091848114193602442
12.6136
mlin-fermikitSNP*map_sirenhet
82.6394
70.9993
98.8447
48.1176
64603263886459575518
2.3841
ciseli-customINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged*
60.8751
59.9982
61.7781
66.5944
3920726140395252445417134
70.0662
ciseli-customINDEL*lowcmp_Human_Full_Genome_TRDB_hg19_150331*
60.8751
59.9982
61.7781
66.5944
3920726140395252445417134
70.0662
ckim-vqsrSNPti**
99.3455
98.7474
99.9510
21.8102
2059387261242059330100989
8.8206
ckim-isaacSNP*map_l100_m2_e1*
78.8815
65.2060
99.8157
65.2814
4873326004487409022
24.4444
gduggal-bwaplatSNP*map_siren*
90.0933
82.3317
99.4705
71.0074
12039225836120427641167
26.0530
jpowers-varprowlINDEL*HG002compoundhet*
14.0649
13.8284
14.3095
60.1145
41432581741262470824326
98.4539
ckim-isaacSNP*map_l100_m2_e0*
78.8251
65.1290
99.8156
65.2970
4817225792481798922
24.7191
asubramanian-gatkSNP*HG002complexvar*
98.2310
96.5837
99.9354
19.5730
7286092577272846647154
11.4650
gduggal-bwavardINDEL*HG002compoundhet*
14.6648
14.4226
14.9152
58.8895
43212563943292469523984
97.1209
asubramanian-gatkSNP**homalt
98.8858
97.8294
99.9654
17.5292
115454425617115452140039
9.7500
ghariani-varprowlINDEL*HG002compoundhet*
14.6445
14.5761
14.7135
73.0382
43672559343342512224561
97.7669
ckim-isaacSNP*map_l100_m1_e0*
78.4897
64.6727
99.8146
63.0504
4682525578468328722
25.2874
gduggal-bwaplatINDEL**het
92.4727
86.8430
98.8829
67.5454
168591255421685401904839
44.0651
gduggal-bwaplatSNP*HG002complexvar*
97.7797
96.6309
98.9561
21.4247
7289652541672951676961060
13.7734
gduggal-snapplatINDEL*HG002complexvar*
75.2674
67.2243
85.4968
64.1998
51721252175592694871463
15.4211