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 ... 192 193 194 195 196 197 198 199 200 ... 1720 1721 » 9751-9800 / 86044 show all
jlack-gatk	SNP	tv	lowcmp_SimpleRepeat_homopolymer_6to10	het	99.8006	99.8575	99.7437	62.4217	7009	10	7005	18	3	16.6667
ckim-gatk	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	homalt	97.7654	99.8573	95.7592	54.7998	2800	4	2800	124	123	99.1935
ckim-vqsr	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	homalt	97.7824	99.8573	95.7920	54.8083	2800	4	2800	123	122	99.1870
ltrigg-rtg2	SNP	*	*	het	99.8157	99.8572	99.7742	16.9842	1870922	2676	1871158	4235	135	3.1877
ltrigg-rtg1	SNP	*	*	het	99.8185	99.8570	99.7799	17.5567	1870919	2679	1871167	4127	102	2.4715
bgallagher-sentieon	SNP	ti	segdup	*	99.5103	99.8567	99.1663	89.5899	19509	28	19507	164	6	3.6585
ciseli-custom	SNP	*	func_cds	homalt	99.2844	99.8567	98.7187	22.2148	6969	10	6934	90	38	42.2222
bgallagher-sentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	98.6936	99.8565	97.5576	63.3125	8348	12	8348	209	208	99.5215
bgallagher-sentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	98.6936	99.8565	97.5576	63.3125	8348	12	8348	209	208	99.5215
raldana-dualsentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	98.9393	99.8565	98.0388	61.8965	8348	12	8348	167	166	99.4012
raldana-dualsentieon	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	98.9393	99.8565	98.0388	61.8965	8348	12	8348	167	166	99.4012
jlack-gatk	SNP	*	lowcmp_AllRepeats_lt51bp_gt95identity_merged	homalt	99.8935	99.8564	99.9306	55.5702	20170	29	20170	14	13	92.8571
hfeng-pmm2	SNP	tv	map_l100_m1_e0	homalt	99.8507	99.8562	99.8452	62.5538	9030	13	9030	14	5	35.7143
hfeng-pmm2	SNP	tv	*	het	99.8886	99.8560	99.9212	22.0414	590844	852	590770	466	18	3.8627
rpoplin-dv42	SNP	*	lowcmp_AllRepeats_lt51bp_gt95identity_merged	het	99.8560	99.8560	99.8559	61.0125	35368	51	35352	51	31	60.7843
jli-custom	SNP	tv	HG002complexvar	het	99.9074	99.8560	99.9588	21.3761	150514	217	150454	62	22	35.4839
jmaeng-gatk	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	99.7479	99.8558	99.6403	66.1800	1385	2	1385	5	0	0.0000
rpoplin-dv42	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	99.8558	99.8558	99.8558	64.1880	1385	2	1385	2	1	50.0000
jlack-gatk	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	98.9286	99.8558	98.0184	66.5562	1385	2	1385	28	1	3.5714
ckim-dragen	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	99.8217	99.8558	99.7875	65.2986	1385	2	1409	3	2	66.6667
ckim-gatk	SNP	tv	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	het	99.6761	99.8558	99.4971	65.7565	1385	2	1385	7	0	0.0000
ckim-gatk	INDEL	I6_15	*	homalt	97.7332	99.8557	95.6989	54.8919	6230	9	6230	280	278	99.2857
dgrover-gatk	INDEL	I6_15	*	homalt	97.7715	99.8557	95.7725	55.4177	6230	9	6230	275	272	98.9091
ckim-vqsr	INDEL	I6_15	*	homalt	97.7408	99.8557	95.7136	54.8957	6230	9	6230	279	277	99.2832
astatham-gatk	INDEL	I6_15	*	homalt	97.7332	99.8557	95.6989	54.9107	6230	9	6230	280	278	99.2857
eyeh-varpipe	SNP	*	map_l100_m1_e0	homalt	99.8701	99.8556	99.8846	63.0607	26964	39	25962	30	16	53.3333
bgallagher-sentieon	SNP	tv	lowcmp_AllRepeats_lt51bp_gt95identity_merged	*	99.4994	99.8555	99.1459	64.4153	27638	40	27628	238	20	8.4034
cchapple-custom	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	homalt	99.9276	99.8554	100.0000	53.0584	1381	2	1366	0	0
ckim-vqsr	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged	homalt	99.9276	99.8554	100.0000	56.9648	1381	2	1381	0	0
hfeng-pmm1	SNP	tv	*	het	99.9077	99.8553	99.9601	20.8554	590840	856	590766	236	19	8.0509
ckim-vqsr	INDEL	*	lowcmp_SimpleRepeat_diTR_11to50	homalt	99.0234	99.8552	98.2053	45.9033	10342	15	10342	189	184	97.3545
gduggal-bwafb	SNP	tv	lowcmp_SimpleRepeat_triTR_11to50	*	99.5239	99.8551	99.1949	41.9366	3445	5	3450	28	3	10.7143
jlack-gatk	SNP	tv	lowcmp_SimpleRepeat_triTR_11to50	*	99.3650	99.8551	98.8796	40.1582	3445	5	3442	39	2	5.1282
jli-custom	SNP	tv	lowcmp_SimpleRepeat_quadTR_11to50	homalt	99.8912	99.8550	99.9274	36.4538	2754	4	2754	2	2	100.0000
ghariani-varprowl	SNP	tv	lowcmp_SimpleRepeat_quadTR_11to50	homalt	98.0963	99.8550	96.3986	45.7203	2754	4	2757	103	70	67.9612
hfeng-pmm1	INDEL	D1_5	*	homalt	99.8651	99.8549	99.8753	58.6796	48855	71	48859	61	60	98.3607
ghariani-varprowl	SNP	ti	func_cds	*	99.6201	99.8549	99.3864	28.0976	13767	20	13767	85	9	10.5882
ltrigg-rtg2	SNP	tv	HG002complexvar	homalt	99.9174	99.8549	99.9800	22.4289	94973	138	95001	19	19	100.0000
dgrover-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	*	99.7174	99.8545	99.5807	55.4302	6175	9	6175	26	1	3.8462
ckim-gatk	SNP	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged	*	99.7416	99.8545	99.6289	56.0363	6175	9	6175	23	2	8.6957
astatham-gatk	INDEL	I1_5	*	homalt	99.7125	99.8544	99.5710	55.1217	60340	88	60345	260	257	98.8462
gduggal-bwafb	SNP	tv	*	het	99.6077	99.8543	99.3624	27.5297	590842	862	590931	3792	213	5.6171
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-rtg2	SNP	*	lowcmp_SimpleRepeat_triTR_11to50	homalt	99.8903	99.8539	99.9268	27.2049	2734	4	2730	2	2	100.0000
ltrigg-rtg1	SNP	*	lowcmp_SimpleRepeat_triTR_11to50	homalt	99.8903	99.8539	99.9268	27.7249	2734	4	2730	2	2	100.0000
jli-custom	INDEL	*	*	homalt	99.7041	99.8538	99.5548	57.2311	124989	183	124999	559	535	95.7066
gduggal-bwafb	SNP	tv	*	*	99.7254	99.8534	99.5978	25.3671	968276	1422	968379	3911	282	7.2104
bgallagher-sentieon	SNP	ti	segdup	homalt	99.9000	99.8534	99.9467	87.4231	7494	11	7494	4	4	100.0000
dgrover-gatk	SNP	ti	segdup	homalt	99.9067	99.8534	99.9600	87.5169	7494	11	7494	3	3	100.0000
jli-custom	INDEL	I1_5	*	homalt	99.8065	99.8527	99.7603	53.8126	60339	89	60343	145	140	96.5517

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge