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view test-data/cnv_baf_only.vcf @ 10:f867422772d6 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
author iuc
date Thu, 17 Oct 2019 02:49:33 -0400
parents 70b8e9908ea8
children
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##fileformat=VCFv4.2
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=BAF,Number=1,Type=Float,Description="B Allele Frequency">
#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	test
10	135656	rs10904561	T	G	.	.	.	GT:BAF	0/1:0.5176
10	135708	rs7917054	G	A	.	.	.	GT:BAF	1/0:0.501
10	178434	rs7089889	T	G	.	.	.	GT:BAF	0/1:0.4833
10	188805	rs12146291	A	G	.	.	.	GT:BAF	0/1:0.4715
10	203471	rs10903451	A	G	.	.	.	GT:BAF	0/0:0.0000
10	252693	rs2379078	T	C	.	.	.	GT:BAF	0/0:0.0068
10	273344	rs2448378	A	C	.	.	.	GT:BAF	0/0:0.0000
10	279248	rs2496278	C	A	.	.	.	GT:BAF	1/0:0.6268
10	291134	rs10508201	T	C	.	.	.	GT:BAF	0/1:0.4723
10	293358	exm2249181	A	C	.	.	.	GT:BAF	0/0:0.0044
10	313504	rs4880568	C	T	.	.	.	GT:BAF	1/1:0.9803
10	317501	rs2018975	C	T	.	.	.	GT:BAF	0/0:0
10	323283	rs3740304	A	G	.	.	.	GT:BAF	0/1:0.5588
10	326894	rs3125027	T	C	.	.	.	GT:BAF	0/0:0.0005
10	327162	exm805022	C	T	.	.	.	GT:BAF	0/0:0
10	329493	rs3815985	C	A	.	.	.	GT:BAF	1/0:0.5187
10	338553	rs3125031	C	T	.	.	.	GT:BAF	1/0:0.4696
10	354301	rs35198327	C	T	.	.	.	GT:BAF	1/0:0.4929
10	375475	variant.11341	C	T	.	.	.	GT:BAF	0/0:0.000199999999999978
10	377161	rs7070654	C	T	.	.	.	GT:BAF	0/0:0
10	387060	rs7904155	G	A	.	.	.	GT:BAF	1/1:0.9945
10	390962	exm805090	G	A	.	.	.	GT:BAF	0/0:9.9999999999989e-05
10	390983	exm805091	G	A	.	.	.	GT:BAF	0/0:0
10	394615	exm805105	G	A	.	.	.	GT:BAF	0/0:0
10	402390	exm805131	G	C	.	.	.	GT:BAF	0/0:0.0000
10	403792	exm805136	G	C	.	.	.	GT:BAF	0/0:0.0000
10	410501	exm805166	C	T	.	.	.	GT:BAF	0/0:0
10	413010	rs9787422	C	T	.	.	.	GT:BAF	1/0:0.5334
10	423555	rs12245012	G	A	.	.	.	GT:BAF	0/0:0.00149999999999995
10	423671	rs10904067	C	T	.	.	.	GT:BAF	1/0:0.5566
10	431161	exm2271240	C	T	.	.	.	GT:BAF	1/0:0.4838
10	435971	exm2249233	T	C	.	.	.	GT:BAF	0/0:0.0000
10	435990	exm805214	G	A	.	.	.	GT:BAF	0/0:0
10	453567	rs4881254	C	T	.	.	.	GT:BAF	1/0:0.5079
10	462885	rs10904173	G	A	.	.	.	GT:BAF	1/0:0.4819
10	465046	exm805254	G	A	.	.	.	GT:BAF	0/0:0
10	468599	rs12415961	T	C	.	.	.	GT:BAF	0/1:0.5021
10	486935	exm805280	G	C	.	.	.	GT:BAF	0/0:0.0186
10	487973	rs4881313	T	C	.	.	.	GT:BAF	0/1:0.5628
10	521431	exm2271370	C	T	.	.	.	GT:BAF	1/1:0.9952
10	521723	rs4881336	C	T	.	.	.	GT:BAF	1/1:1
10	547567	rs816599	A	G	.	.	.	GT:BAF	1/1:1.0000
10	554186	rs12251997	C	T	.	.	.	GT:BAF	0/0:0.00309999999999999
10	556129	rs10466270	A	G	.	.	.	GT:BAF	0/1:0.5142
10	566379	rs11252926	C	T	.	.	.	GT:BAF	1/0:0.5024
10	588406	rs10904450	A	G	.	.	.	GT:BAF	0/0:0.0006
10	592283	rs816646	G	A	.	.	.	GT:BAF	1/0:0.5006
10	601089	rs816650	C	T	.	.	.	GT:BAF	0/0:0
10	615782	rs17221309	G	A	.	.	.	GT:BAF	0/0:0.00319999999999998
10	635857	rs7069611	T	C	.	.	.	GT:BAF	0/0:0.0013
10	669358	rs7898821	G	A	.	.	.	GT:BAF	0/0:0
10	673037	rs816563	C	T	.	.	.	GT:BAF	1/1:0.9065
10	680428	rs2124585	G	A	.	.	.	GT:BAF	1/0:0.5212
10	712617	rs17136372	A	C	.	.	.	GT:BAF	1/1:0.9992
10	738630	rs1750792	C	T	.	.	.	GT:BAF	0/0:0
10	749238	rs553326	G	T	.	.	.	GT:BAF	0/0:0.00229999999999997
10	754033	rs2265090	C	A	.	.	.	GT:BAF	0/0:0
10	757222	rs10904546	A	G	.	.	.	GT:BAF	0/0:0.0000
10	766105	rs7906313	T	C	.	.	.	GT:BAF	0/0:0.0116
10	776027	rs11253377	C	T	.	.	.	GT:BAF	1/1:0.9964
10	787896	rs1769242	T	C	.	.	.	GT:BAF	0/0:0.0000
10	800213	rs2254501	G	A	.	.	.	GT:BAF	1/1:0.9918
10	802445	rs1769215	C	T	.	.	.	GT:BAF	0/0:0.00370000000000004
10	803721	rs2790381	C	T	.	.	.	GT:BAF	1/1:0.9798
10	811876	rs12414585	G	A	.	.	.	GT:BAF	1/0:0.516
10	813426	rs11253424	C	T	.	.	.	GT:BAF	0/0:0
10	815149	rs7084027	A	G	.	.	.	GT:BAF	1/1:0.9944
10	820868	rs10752019	C	T	.	.	.	GT:BAF	0/0:0.0118
10	833528	exm2271241	T	G	.	.	.	GT:BAF	0/1:0.4896
10	834736	rs4881530	G	A	.	.	.	GT:BAF	0/0:0.00249999999999995
10	836115	rs11253444	A	G	.	.	.	GT:BAF	0/1:0.5199
10	838179	rs1536337	T	C	.	.	.	GT:BAF	0/0:0.0000
10	858022	rs9124	C	T	.	.	.	GT:BAF	0/0:0
10	858924	exm805329	G	A	.	.	.	GT:BAF	0/0:0
10	859047	exm805338	C	A	.	.	.	GT:BAF	0/0:0
10	860687	exm805350	C	T	.	.	.	GT:BAF	0/0:0
10	860726	exm805354	T	C	.	.	.	GT:BAF	0/0:0.0000
10	860970	exm805360	A	G	.	.	.	GT:BAF	0/0:0.0000
10	871110	exm805378	G	C	.	.	.	GT:BAF	0/0:0.0000
10	871746	exm805386	G	A	.	.	.	GT:BAF	0/0:0.00239999999999996
10	875350	exm805392	G	A	.	.	.	GT:BAF	0/0:0
10	888899	exm805400	C	T	.	.	.	GT:BAF	0/0:0.00470000000000004
10	888916	exm805401	T	C	.	.	.	GT:BAF	0/0:0.0000
10	894838	rs12249828	C	T	.	.	.	GT:BAF	1/0:0.4839
10	903950	rs11253471	A	G	.	.	.	GT:BAF	0/1:0.4747
10	909757	exm805413	G	A	.	.	.	GT:BAF	0/0:0
10	909766	exm805415	G	A	.	.	.	GT:BAF	0/0:0
10	910074	exm805420	C	T	.	.	.	GT:BAF	0/0:0.0071
10	910081	exm805421	C	T	.	.	.	GT:BAF	0/0:0.002
10	927331	rs11253489	G	A	.	.	.	GT:BAF	1/0:0.5325
10	931618	exm805430	G	A	.	.	.	GT:BAF	0/0:0
10	931631	exm805431	C	T	.	.	.	GT:BAF	0/0:0.00390000000000001
11	135656	rs10904561	T	G	.	.	.	GT:BAF	0/1:0.5176
11	135708	rs7917054	G	A	.	.	.	GT:BAF	1/0:0.501
11	178434	rs7089889	T	G	.	.	.	GT:BAF	0/1:0.4833
11	188805	rs12146291	A	G	.	.	.	GT:BAF	0/1:0.4715
11	203471	rs10903451	A	G	.	.	.	GT:BAF	0/0:0.0000
11	252693	rs2379078	T	C	.	.	.	GT:BAF	0/0:0.0068
11	273344	rs2448378	A	C	.	.	.	GT:BAF	0/0:0.0000
11	279248	rs2496278	C	A	.	.	.	GT:BAF	1/0:0.6268
11	291134	rs10508201	T	C	.	.	.	GT:BAF	0/1:0.4723
11	293358	exm2249181	A	C	.	.	.	GT:BAF	0/0:0.0044
11	313504	rs4880568	C	T	.	.	.	GT:BAF	1/1:0.9803
11	317501	rs2018975	C	T	.	.	.	GT:BAF	0/0:0
11	323283	rs3740304	A	G	.	.	.	GT:BAF	0/1:0.5588
11	326894	rs3125027	T	C	.	.	.	GT:BAF	0/0:0.0005
11	327162	exm805022	C	T	.	.	.	GT:BAF	0/0:0
11	329493	rs3815985	C	A	.	.	.	GT:BAF	1/0:0.5187
11	338553	rs3125031	C	T	.	.	.	GT:BAF	1/0:0.4696
11	354301	rs35198327	C	T	.	.	.	GT:BAF	1/0:0.4929
11	375475	variant.11341	C	T	.	.	.	GT:BAF	0/0:0.000199999999999978
11	377161	rs7070654	C	T	.	.	.	GT:BAF	0/0:0
11	387060	rs7904155	G	A	.	.	.	GT:BAF	1/1:0.9945
11	390962	exm805090	G	A	.	.	.	GT:BAF	0/0:9.9999999999989e-05
11	390983	exm805091	G	A	.	.	.	GT:BAF	0/0:0
11	394615	exm805105	G	A	.	.	.	GT:BAF	0/0:0
11	402390	exm805131	G	C	.	.	.	GT:BAF	0/0:0.0000
11	403792	exm805136	G	C	.	.	.	GT:BAF	0/0:0.0000
11	410501	exm805166	C	T	.	.	.	GT:BAF	0/0:0
11	413010	rs9787422	C	T	.	.	.	GT:BAF	1/0:0.5334
11	423555	rs12245012	G	A	.	.	.	GT:BAF	0/0:0.00149999999999995
11	423671	rs10904067	C	T	.	.	.	GT:BAF	1/0:0.5566
11	431161	exm2271240	C	T	.	.	.	GT:BAF	1/0:0.4838
11	435971	exm2249233	T	C	.	.	.	GT:BAF	0/0:0.0000
11	435990	exm805214	G	A	.	.	.	GT:BAF	0/0:0
11	453567	rs4881254	C	T	.	.	.	GT:BAF	1/0:0.5079
11	462885	rs10904173	G	A	.	.	.	GT:BAF	1/0:0.4819
11	465046	exm805254	G	A	.	.	.	GT:BAF	0/0:0
11	468599	rs12415961	T	C	.	.	.	GT:BAF	0/1:0.5021
11	486935	exm805280	G	C	.	.	.	GT:BAF	0/0:0.0186
11	487973	rs4881313	T	C	.	.	.	GT:BAF	0/1:0.5628
11	521431	exm2271370	C	T	.	.	.	GT:BAF	1/1:0.9952
11	521723	rs4881336	C	T	.	.	.	GT:BAF	1/1:1
11	547567	rs816599	A	G	.	.	.	GT:BAF	1/1:1.0000
11	554186	rs12251997	C	T	.	.	.	GT:BAF	0/0:0.00309999999999999
11	556129	rs10466270	A	G	.	.	.	GT:BAF	0/1:0.5142
11	566379	rs11252926	C	T	.	.	.	GT:BAF	1/0:0.5024
11	588406	rs10904450	A	G	.	.	.	GT:BAF	0/0:0.0006
11	592283	rs816646	G	A	.	.	.	GT:BAF	1/0:0.5006
11	601089	rs816650	C	T	.	.	.	GT:BAF	0/0:0
11	615782	rs17221309	G	A	.	.	.	GT:BAF	0/0:0.00319999999999998
11	635857	rs7069611	T	C	.	.	.	GT:BAF	0/0:0.0013
11	669358	rs7898821	G	A	.	.	.	GT:BAF	0/0:0
11	673037	rs816563	C	T	.	.	.	GT:BAF	1/1:0.9065
11	680428	rs2124585	G	A	.	.	.	GT:BAF	1/0:0.5212
11	712617	rs17136372	A	C	.	.	.	GT:BAF	1/1:0.9992
11	738630	rs1750792	C	T	.	.	.	GT:BAF	0/0:0
11	749238	rs553326	G	T	.	.	.	GT:BAF	0/0:0.00229999999999997
11	754033	rs2265090	C	A	.	.	.	GT:BAF	0/0:0
11	757222	rs10904546	A	G	.	.	.	GT:BAF	0/0:0.0000
11	766105	rs7906313	T	C	.	.	.	GT:BAF	0/0:0.0116
11	776027	rs11253377	C	T	.	.	.	GT:BAF	1/1:0.9964
11	787896	rs1769242	T	C	.	.	.	GT:BAF	0/0:0.0000
11	800213	rs2254501	G	A	.	.	.	GT:BAF	1/1:0.9918
11	802445	rs1769215	C	T	.	.	.	GT:BAF	0/0:0.00370000000000004
11	803721	rs2790381	C	T	.	.	.	GT:BAF	1/1:0.9798
11	811876	rs12414585	G	A	.	.	.	GT:BAF	1/0:0.516
11	813426	rs11253424	C	T	.	.	.	GT:BAF	0/0:0
11	815149	rs7084027	A	G	.	.	.	GT:BAF	1/1:0.9944
11	820868	rs10752019	C	T	.	.	.	GT:BAF	0/0:0.0118
11	833528	exm2271241	T	G	.	.	.	GT:BAF	0/1:0.4896
11	834736	rs4881530	G	A	.	.	.	GT:BAF	0/0:0.00249999999999995
11	836115	rs11253444	A	G	.	.	.	GT:BAF	0/1:0.5199
11	838179	rs1536337	T	C	.	.	.	GT:BAF	0/0:0.0000
11	858022	rs9124	C	T	.	.	.	GT:BAF	0/0:0
11	858924	exm805329	G	A	.	.	.	GT:BAF	0/0:0
11	859047	exm805338	C	A	.	.	.	GT:BAF	0/0:0
11	860687	exm805350	C	T	.	.	.	GT:BAF	0/0:0
11	860726	exm805354	T	C	.	.	.	GT:BAF	0/0:0.0000
11	860970	exm805360	A	G	.	.	.	GT:BAF	0/0:0.0000
11	871110	exm805378	G	C	.	.	.	GT:BAF	0/0:0.0000
11	871746	exm805386	G	A	.	.	.	GT:BAF	0/0:0.00239999999999996
11	875350	exm805392	G	A	.	.	.	GT:BAF	0/0:0
11	888899	exm805400	C	T	.	.	.	GT:BAF	0/0:0.00470000000000004
11	888916	exm805401	T	C	.	.	.	GT:BAF	0/0:0.0000
11	894838	rs12249828	C	T	.	.	.	GT:BAF	1/0:0.4839
11	903950	rs11253471	A	G	.	.	.	GT:BAF	0/1:0.4747
11	909757	exm805413	G	A	.	.	.	GT:BAF	0/0:0
11	909766	exm805415	G	A	.	.	.	GT:BAF	0/0:0
11	910074	exm805420	C	T	.	.	.	GT:BAF	0/0:0.0071
11	910081	exm805421	C	T	.	.	.	GT:BAF	0/0:0.002
11	927331	rs11253489	G	A	.	.	.	GT:BAF	1/0:0.5325
11	931618	exm805430	G	A	.	.	.	GT:BAF	0/0:0
11	931631	exm805431	C	T	.	.	.	GT:BAF	0/0:0.00390000000000001