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.

Entry	Type	Subtype	Subset	Genotype	F-score	Recall	Precision	Frac_NA	Truth TP	Truth FN	Query TP	Query FP	FP gt	% FP ma

« 1 2 ... 1413 1414 1415 1416 1417 1418 1419 1420 1421 ... 1720 1721 » 70801-70850 / 86044 show all
ckim-vqsr	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.6029	93.5337	99.8803	39.4384	3298	228	3339	4	4	100.0000
ckim-vqsr	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.6029	93.5337	99.8803	39.4384	3298	228	3339	4	4	100.0000
ckim-dragen	SNP	ti	map_l100_m2_e1	homalt	99.6178	99.3565	99.8804	57.3860	18375	119	18380	22	20	90.9091
ckim-gatk	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.6181	93.5621	99.8804	39.4313	3299	227	3340	4	4	100.0000
ckim-gatk	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.6181	93.5621	99.8804	39.4313	3299	227	3340	4	4	100.0000
ltrigg-rtg2	SNP	ti	map_l150_m2_e0	*	98.7701	97.6843	99.8804	65.6662	20037	475	20041	24	7	29.1667
eyeh-varpipe	SNP	*	map_l150_m1_e0	homalt	99.8338	99.7871	99.8804	73.5129	11249	24	10861	13	8	61.5385
astatham-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	98.9336	98.0047	99.8804	84.7751	835	17	835	1	1	100.0000
astatham-gatk	SNP	ti	map_l150_m2_e0	homalt	99.3599	98.8445	99.8806	70.6148	7528	88	7528	9	8	88.8889
jlack-gatk	SNP	tv	map_l100_m2_e1	homalt	99.4059	98.9357	99.8806	62.6933	9203	99	9203	11	7	63.6364
raldana-dualsentieon	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	het	98.8777	97.8947	99.8807	46.8948	837	18	837	1	0	0.0000
astatham-gatk	SNP	*	map_l125_m1_e0	homalt	99.4624	99.0476	99.8807	63.5573	16744	161	16744	20	16	80.0000
astatham-gatk	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	het	98.8777	97.8947	99.8807	50.7349	837	18	837	1	0	0.0000
ltrigg-rtg2	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.4680	99.0588	99.8807	41.3986	842	8	837	1	0	0.0000
ckim-dragen	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	hetalt	96.6831	93.6838	99.8808	36.3590	2477	167	2514	3	3	100.0000
cchapple-custom	SNP	*	HG002complexvar	het	99.7839	99.6872	99.8808	18.7433	464041	1456	463256	553	394	71.2477
dgrover-gatk	SNP	*	map_l150_m2_e1	homalt	99.5206	99.1629	99.8808	71.2164	11728	99	11728	14	10	71.4286
ltrigg-rtg1	SNP	ti	map_l100_m2_e1	homalt	99.8025	99.7242	99.8809	61.9106	18443	51	18443	22	22	100.0000
bgallagher-sentieon	INDEL	I6_15	lowcmp_SimpleRepeat_diTR_11to50	hetalt	96.5585	93.4500	99.8809	40.1426	1655	116	1677	2	2	100.0000
hfeng-pmm1	SNP	ti	map_l100_m2_e1	homalt	99.8621	99.8432	99.8810	62.5754	18465	29	18465	22	12	54.5455
hfeng-pmm3	SNP	ti	map_l100_m2_e1	homalt	99.8675	99.8540	99.8810	62.4833	18467	27	18467	22	12	54.5455
ltrigg-rtg1	SNP	*	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.8441	99.8073	99.8810	33.7603	6732	13	6714	8	1	12.5000
ltrigg-rtg1	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.5867	99.2941	99.8810	43.2816	844	6	839	1	0	0.0000
cchapple-custom	INDEL	D1_5	lowcmp_SimpleRepeat_homopolymer_6to10	*	99.7531	99.6254	99.8811	52.9851	25264	95	25209	30	21	70.0000
jlack-gatk	SNP	ti	map_l150_m2_e1	homalt	99.0828	98.2972	99.8811	71.3252	7562	131	7562	9	7	77.7778
jli-custom	INDEL	I1_5	HG002complexvar	homalt	99.8996	99.9182	99.8811	52.2818	13437	11	13441	16	14	87.5000
dgrover-gatk	SNP	tv	*	*	99.9211	99.9611	99.8812	22.3092	969313	377	969227	1153	81	7.0252
ckim-dragen	SNP	ti	lowcmp_SimpleRepeat_diTR_11to50	homalt	99.6736	99.4668	99.8812	64.0938	1679	9	1682	2	2	100.0000
bgallagher-sentieon	SNP	*	map_l125_m1_e0	homalt	99.7275	99.5741	99.8813	63.4132	16833	72	16833	20	15	75.0000
rpoplin-dv42	SNP	ti	lowcmp_SimpleRepeat_quadTR_11to50	het	99.8665	99.8517	99.8813	39.6598	6734	10	6732	8	2	25.0000
raldana-dualsentieon	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	96.1914	92.7644	99.8814	32.5739	1500	117	1685	2	2	100.0000
bgallagher-sentieon	SNP	ti	lowcmp_SimpleRepeat_diTR_11to50	homalt	99.8222	99.7630	99.8814	64.1429	1684	4	1684	2	2	100.0000
bgallagher-sentieon	SNP	ti	map_l150_m2_e0	homalt	99.6909	99.5011	99.8814	70.4694	7578	38	7578	9	7	77.7778
gduggal-bwafb	SNP	ti	map_l125_m1_e0	homalt	99.4956	99.1127	99.8814	67.6839	10947	98	10947	13	7	53.8462
ckim-gatk	INDEL	D1_5	lowcmp_SimpleRepeat_homopolymer_6to10	*	99.8126	99.7437	99.8815	55.8039	25294	65	25297	30	17	56.6667
hfeng-pmm3	INDEL	D1_5	*	homalt	99.8825	99.8835	99.8815	58.1721	48869	57	48874	58	56	96.5517
ltrigg-rtg2	SNP	ti	map_l150_m2_e1	*	98.7779	97.6982	99.8816	65.7932	20246	477	20250	24	7	29.1667
dgrover-gatk	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	hetalt	97.0047	94.2890	99.8816	37.0370	2493	151	2530	3	3	100.0000
ckim-vqsr	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	99.5289	99.1784	99.8818	84.5845	845	7	845	1	1	100.0000
egarrison-hhga	SNP	tv	map_siren	*	99.6246	99.3686	99.8818	55.8072	45640	290	45640	54	25	46.2963
ckim-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	99.5289	99.1784	99.8818	84.5845	845	7	845	1	1	100.0000
gduggal-bwavard	SNP	*	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	98.6054	97.3613	99.8818	50.3445	19666	533	19436	23	17	73.9130
jli-custom	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	99.5289	99.1784	99.8818	84.7237	845	7	845	1	0	0.0000
astatham-gatk	SNP	ti	map_l150_m2_e1	homalt	99.3663	98.8561	99.8818	70.6476	7605	88	7605	9	8	88.8889
astatham-gatk	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	97.2350	94.7249	99.8818	43.0518	3340	186	3381	4	4	100.0000
astatham-gatk	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	97.2350	94.7249	99.8818	43.0518	3340	186	3381	4	4	100.0000
hfeng-pmm3	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.7054	99.5294	99.8819	48.3851	846	4	846	1	1	100.0000
hfeng-pmm1	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.7054	99.5294	99.8819	48.1640	846	4	846	1	1	100.0000
hfeng-pmm2	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	96.6222	93.5683	99.8821	33.8144	1513	104	1695	2	2	100.0000
jmaeng-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	99.6471	99.4131	99.8821	84.7756	847	5	847	1	1	100.0000

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge