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 ... 1503 1504 1505 1506 1507 1508 1509 1510 1511 ... 1720 1721 » 75301-75350 / 86044 show all
ckim-gatk	SNP	*	lowcmp_SimpleRepeat_quadTR_11to50	het	98.8341	99.7463	97.9383	44.8790	11404	29	11401	240	3	1.2500
eyeh-varpipe	SNP	tv	map_l100_m2_e0	het	96.0096	99.7465	92.5426	72.2574	15737	40	15549	1253	16	1.2769
ltrigg-rtg1	SNP	tv	map_l150_m1_e0	homalt	99.8478	99.7466	99.9492	70.2200	3936	10	3937	2	2	100.0000
hfeng-pmm3	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	99.8555	99.7467	99.9646	71.3411	16932	43	16932	6	3	50.0000
hfeng-pmm3	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	99.8555	99.7467	99.9646	71.3411	16932	43	16932	6	3	50.0000
jli-custom	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	het	99.6207	99.7468	99.4949	51.0355	1576	4	1576	8	0	0.0000
eyeh-varpipe	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	het	96.8428	99.7468	94.1030	63.9275	1576	4	1516	95	6	6.3158
gduggal-bwafb	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	het	98.6534	99.7468	97.5836	59.0978	1576	4	1575	39	7	17.9487
bgallagher-sentieon	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	98.3553	99.7468	97.0021	67.1820	18120	46	18120	560	541	96.6071
bgallagher-sentieon	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	98.3553	99.7468	97.0021	67.1820	18120	46	18120	560	541	96.6071
hfeng-pmm1	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	99.5997	99.7468	99.4531	47.3533	2364	6	2364	13	13	100.0000
astatham-gatk	INDEL	D1_5	lowcmp_SimpleRepeat_quadTR_11to50	het	99.7024	99.7469	99.6579	53.4220	6699	17	6701	23	8	34.7826
ckim-dragen	INDEL	D6_15	*	homalt	97.3161	99.7471	95.0008	59.2976	6310	16	6309	332	329	99.0964
jli-custom	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	homalt	98.7488	99.7472	97.7702	52.2408	3157	8	3157	72	71	98.6111
ckim-gatk	SNP	*	lowcmp_SimpleRepeat_homopolymer_6to10	het	99.8284	99.7474	99.9096	58.5102	11056	28	11052	10	4	40.0000
astatham-gatk	SNP	*	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	99.8587	99.7475	99.9702	56.3085	20148	51	20148	6	6	100.0000
dgrover-gatk	INDEL	*	lowcmp_SimpleRepeat_triTR_11to50	*	99.7994	99.7475	99.8514	49.4629	6716	17	6718	10	6	60.0000
eyeh-varpipe	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	homalt	76.3850	99.7475	61.8895	40.6948	4741	12	4828	2973	2967	99.7982
jlack-gatk	INDEL	D1_5	lowcmp_SimpleRepeat_homopolymer_6to10	*	99.7712	99.7476	99.7949	55.7977	25295	64	25298	52	25	48.0769
jlack-gatk	SNP	ti	lowcmp_AllRepeats_lt51bp_gt95identity_merged	het	99.1812	99.7479	98.6208	60.0301	17806	45	17805	249	13	5.2209
jlack-gatk	SNP	ti	lowcmp_SimpleRepeat_quadTR_11to50	het	98.5569	99.7479	97.3939	48.1612	6727	17	6727	180	3	1.6667
ckim-gatk	SNP	ti	lowcmp_SimpleRepeat_quadTR_11to50	het	99.2183	99.7479	98.6942	45.7109	6727	17	6727	89	2	2.2472
rpoplin-dv42	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	het	99.3720	99.7481	98.9987	88.0853	792	2	791	8	6	75.0000
astatham-gatk	SNP	tv	func_cds	*	99.8283	99.7483	99.9083	29.1951	4360	11	4359	4	0	0.0000
eyeh-varpipe	SNP	tv	map_l100_m2_e1	het	96.0176	99.7490	92.5553	72.3251	15898	40	15702	1263	16	1.2668
ltrigg-rtg1	SNP	ti	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.8619	99.7492	99.9748	32.5060	3977	10	3969	1	0	0.0000
jlack-gatk	INDEL	*	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	99.1165	99.7497	98.4914	72.1867	30684	77	30684	470	460	97.8723
eyeh-varpipe	SNP	tv	map_l125_m1_e0	*	97.8643	99.7502	96.0484	73.9143	15976	40	15872	653	17	2.6034
hfeng-pmm3	SNP	ti	segdup	het	99.5602	99.7506	99.3705	89.3230	12000	30	11998	76	0	0.0000
rpoplin-dv42	SNP	*	segdup	*	99.7488	99.7506	99.7470	89.9398	27997	70	27991	71	31	43.6620
ltrigg-rtg1	SNP	tv	map_l125_m2_e0	homalt	99.8420	99.7507	99.9334	68.3459	6002	15	6003	4	4	100.0000
jli-custom	SNP	tv	lowcmp_AllRepeats_lt51bp_gt95identity_merged	*	99.4506	99.7507	99.1523	64.1117	27609	69	27604	236	18	7.6271
eyeh-varpipe	SNP	ti	map_l250_m1_e0	homalt	99.8123	99.7511	99.8737	88.1405	1603	4	1581	2	2	100.0000
rpoplin-dv42	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8755	99.7514	100.0000	52.7941	1605	4	1605	0	0
dgrover-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8445	99.7514	99.9377	43.6886	1605	4	1605	1	1	100.0000
astatham-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8445	99.7514	99.9377	43.3110	1605	4	1605	1	1	100.0000
bgallagher-sentieon	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8755	99.7514	100.0000	43.3263	1605	4	1605	0	0
jlack-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8134	99.7514	99.8755	42.5661	1605	4	1605	2	2	100.0000
ckim-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	99.8445	99.7514	99.9377	43.4109	1605	4	1605	1	1	100.0000
eyeh-varpipe	SNP	ti	map_siren	het	99.1597	99.7515	98.5748	60.2517	62227	155	60657	877	34	3.8769
rpoplin-dv42	SNP	ti	lowcmp_SimpleRepeat_diTR_11to50	*	99.7622	99.7519	99.7725	68.8442	4825	12	4825	11	7	63.6364
jli-custom	SNP	ti	map_siren	homalt	99.8561	99.7521	99.9604	48.6440	37822	94	37819	15	15	100.0000
hfeng-pmm1	SNP	*	map_l150_m2_e0	homalt	99.7606	99.7521	99.7692	73.4870	11670	29	11670	27	10	37.0370
dgrover-gatk	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	98.7709	99.7523	97.8086	67.6045	18121	45	18121	406	388	95.5665
dgrover-gatk	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	98.7709	99.7523	97.8086	67.6045	18121	45	18121	406	388	95.5665
dgrover-gatk	INDEL	I1_5	map_siren	homalt	99.6298	99.7525	99.5074	78.6951	1209	3	1212	6	4	66.6667
hfeng-pmm2	INDEL	I1_5	map_siren	homalt	99.6707	99.7525	99.5892	76.9508	1209	3	1212	5	4	80.0000
cchapple-custom	SNP	ti	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	99.8364	99.7525	99.9204	39.9139	10077	25	10036	8	6	75.0000
ltrigg-rtg2	SNP	ti	HG002complexvar	het	99.8501	99.7528	99.9475	16.9710	313988	778	313992	165	46	27.8788
ckim-dragen	INDEL	I6_15	HG002complexvar	homalt	97.8586	99.7529	96.0349	55.1086	1211	3	1211	50	50	100.0000

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge