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 ... 1223 1224 1225 1226 1227 1228 1229 1230 1231 ... 1720 1721 » 61301-61350 / 86044 show all
mlin-fermikit	INDEL	D1_5	lowcmp_SimpleRepeat_quadTR_11to50	het	95.6924	96.0989	95.2894	42.1888	6454	262	6453	319	300	94.0439
anovak-vg	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	het	66.4593	77.1439	58.3743	42.1879	6477	1919	9372	6683	5135	76.8367
gduggal-bwaplat	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	90.5336	83.5805	98.7484	42.1852	789	155	789	10	9	90.0000
egarrison-hhga	SNP	ti	HG002complexvar	hetalt	98.5507	98.5507	98.5507	42.1788	204	3	204	3	3	100.0000
jlack-gatk	SNP	*	HG002compoundhet	*	99.5417	99.7018	99.3822	42.1778	25745	77	25738	160	46	28.7500
gduggal-bwafb	INDEL	D1_5	lowcmp_SimpleRepeat_diTR_11to50	het	97.6431	96.1084	99.2277	42.1750	10002	405	15032	117	72	61.5385
gduggal-snapplat	SNP	*	HG002compoundhet	homalt	94.8523	93.4799	96.2656	42.1750	10079	703	10002	388	273	70.3608
ckim-vqsr	SNP	ti	lowcmp_SimpleRepeat_quadTR_11to50	*	99.3478	99.3571	99.3386	42.1628	10663	69	10663	71	1	1.4085
gduggal-bwafb	SNP	*	lowcmp_SimpleRepeat_triTR_11to50	het	99.2360	99.6967	98.7794	42.1600	4602	14	4613	57	9	15.7895
hfeng-pmm1	INDEL	*	func_cds	*	99.4386	99.3258	99.5516	42.1530	442	3	444	2	0	0.0000
ciseli-custom	SNP	*	HG002compoundhet	homalt	82.3846	93.4613	73.6552	42.1506	10077	705	10037	3590	971	27.0474
ckim-gatk	SNP	ti	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	99.7953	99.6820	99.9089	42.1496	2194	7	2194	2	2	100.0000
ndellapenna-hhga	INDEL	D1_5	lowcmp_SimpleRepeat_quadTR_11to50	hetalt	79.5169	66.3764	99.1444	42.1411	991	502	927	8	5	62.5000
rpoplin-dv42	INDEL	I1_5	lowcmp_SimpleRepeat_quadTR_11to50	hetalt	98.4769	97.1706	99.8188	42.1384	1099	32	1102	2	2	100.0000
ltrigg-rtg1	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331	hetalt	96.6948	94.0803	99.4587	42.1375	8741	550	8820	48	47	97.9167
ltrigg-rtg1	INDEL	D1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	hetalt	96.6948	94.0803	99.4587	42.1375	8741	550	8820	48	47	97.9167
jmaeng-gatk	SNP	ti	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	99.7953	99.6820	99.9089	42.1191	2194	7	2194	2	2	100.0000
ndellapenna-hhga	INDEL	D16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	59.5731	42.4788	99.6904	42.1147	401	543	322	1	1	100.0000
ltrigg-rtg2	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	99.1258	98.3867	99.8761	42.1136	3964	65	4032	5	5	100.0000
eyeh-varpipe	INDEL	I6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged	hetalt	37.9488	23.6006	96.7984	42.1136	624	2020	1421	47	47	100.0000
ckim-dragen	SNP	tv	func_cds	het	98.9383	99.9624	97.9351	42.1131	2656	1	2656	56	0	0.0000
hfeng-pmm3	INDEL	*	func_cds	*	99.6618	99.3258	100.0000	42.1121	442	3	444	0	0
gduggal-snapfb	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	het	84.8407	79.4106	91.0680	42.1071	9943	2578	19902	1952	731	37.4488
rpoplin-dv42	SNP	*	tech_badpromoters	het	98.7013	98.7013	98.7013	42.1053	76	1	76	1	1	100.0000
mlin-fermikit	SNP	*	tech_badpromoters	*	93.8907	92.9936	94.8052	42.1053	146	11	146	8	6	75.0000
raldana-dualsentieon	INDEL	D6_15	lowcmp_SimpleRepeat_triTR_11to50	het	98.8539	98.1508	99.5671	42.1053	690	13	690	3	2	66.6667
bgallagher-sentieon	INDEL	I6_15	lowcmp_SimpleRepeat_triTR_51to200	hetalt	90.9091	83.3333	100.0000	42.1053	10	2	11	0	0
asubramanian-gatk	INDEL	C6_15	HG002compoundhet	homalt		0.0000	0.0000	42.1053	0	0	0	22	0	0.0000
gduggal-snapvard	SNP	ti	tech_badpromoters	homalt	89.1892	80.4878	100.0000	42.1053	33	8	33	0	0
ckim-isaac	INDEL	I1_5	lowcmp_SimpleRepeat_quadTR_51to200	hetalt	73.9245	59.9078	96.5035	42.1053	130	87	138	5	5	100.0000
gduggal-bwavard	SNP	tv	lowcmp_SimpleRepeat_triTR_11to50	*	97.5587	96.4058	98.7395	42.1025	3326	124	3290	42	14	33.3333
ckim-dragen	SNP	ti	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged	homalt	98.9274	98.0496	99.8211	42.1025	1106	22	1116	2	2	100.0000
gduggal-bwaplat	INDEL	I1_5	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged	hetalt	85.4276	75.0062	99.2121	42.1023	3022	1007	3022	24	22	91.6667
anovak-vg	SNP	ti	lowcmp_SimpleRepeat_homopolymer_6to10	homalt	98.9096	99.0913	98.7286	42.0919	2181	20	2252	29	10	34.4828
hfeng-pmm1	INDEL	D6_15	lowcmp_SimpleRepeat_quadTR_51to200	homalt	99.4819	100.0000	98.9691	42.0896	192	0	192	2	1	50.0000
eyeh-varpipe	INDEL	D6_15	lowcmp_SimpleRepeat_diTR_11to50	het	90.8247	87.1204	94.8579	42.0846	2381	352	2103	114	109	95.6140
anovak-vg	INDEL	*	lowcmp_SimpleRepeat_triTR_51to200	*	26.7404	22.0721	33.9130	42.0655	49	173	78	152	131	86.1842
cchapple-custom	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged	het	93.9600	91.6530	96.3860	42.0652	560	51	2347	88	80	90.9091
ckim-isaac	INDEL	I6_15	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	67.3433	50.9434	99.3151	42.0635	270	260	290	2	1	50.0000
anovak-vg	SNP	tv	func_cds	het	97.9570	97.3654	98.5557	42.0612	2587	70	2593	38	21	55.2632
egarrison-hhga	SNP	*	HG002complexvar	hetalt	98.7097	98.7097	98.7097	42.0561	306	4	306	4	4	100.0000
egarrison-hhga	SNP	tv	HG002complexvar	hetalt	98.7097	98.7097	98.7097	42.0561	306	4	306	4	4	100.0000
gduggal-bwafb	INDEL	I1_5	func_cds	het	97.5336	98.3051	96.7742	42.0561	58	1	60	2	1	50.0000
ckim-isaac	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331	homalt	91.1743	84.7584	98.6411	42.0544	3192	574	3194	44	30	68.1818
ckim-isaac	INDEL	D6_15	lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged	homalt	91.1743	84.7584	98.6411	42.0544	3192	574	3194	44	30	68.1818
asubramanian-gatk	INDEL	I1_5	lowcmp_AllRepeats_51to200bp_gt95identity_merged	hetalt	90.9078	83.8350	99.2840	42.0470	752	145	832	6	5	83.3333
jmaeng-gatk	SNP	*	lowcmp_SimpleRepeat_quadTR_11to50	*	99.3937	99.6425	99.1462	42.0410	18118	65	18115	156	2	1.2821
ltrigg-rtg2	INDEL	D6_15	*	homalt	99.1477	98.4508	99.8545	42.0407	6228	98	6177	9	7	77.7778
ckim-isaac	INDEL	I16_PLUS	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	hetalt	67.0565	50.4399	100.0000	42.0339	172	169	171	0	0
ltrigg-rtg2	INDEL	*	lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged	homalt	98.5176	97.3637	99.6992	42.0335	9270	251	9282	28	26	92.8571

PrecisionFDA Truth Challenge

PrecisionFDA
Truth Challenge