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diff test-data/vcf/merlin.vcf @ 46:4181e97c70a7 draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a
author fubar
date Mon, 04 Mar 2024 09:47:19 +0000
parents d78175596286
children
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--- a/test-data/vcf/merlin.vcf	Fri Mar 01 05:15:41 2024 +0000
+++ b/test-data/vcf/merlin.vcf	Mon Mar 04 09:47:19 2024 +0000
@@ -3,21 +3,21 @@
 ##source=myImputationProgramV3.1
 ##reference=1000GenomesPilot-NCBI36
 ##phasing=partial
-##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of Samples With Data">
-##INFO=<ID=DP,Number=1,Type=Integer,Description="Total Depth">
-##INFO=<ID=AF,Number=.,Type=Float,Description="Allele Frequency">
-##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral Allele">
-##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP membership, build 129">
-##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2 membership">
-##FILTER=<ID=q10,Description="Quality below 10">
-##FILTER=<ID=s50,Description="Less than 50% of samples have data">
+##INFO=<ID=NS,Number=1,Type=Integer,Description="Number	of	Samples	With	Data">
+##INFO=<ID=DP,Number=1,Type=Integer,Description="Total	Depth">
+##INFO=<ID=AF,Number=.,Type=Float,Description="Allele	Frequency">
+##INFO=<ID=AA,Number=1,Type=String,Description="Ancestral	Allele">
+##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP	membership,	build	129">
+##INFO=<ID=H2,Number=0,Type=Flag,Description="HapMap2	membership">
+##FILTER=<ID=q10,Description="Quality	below	10">
+##FILTER=<ID=s50,Description="Less	than	50%	of	samples	have	data">
 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
-##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
-##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth">
-##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype Quality">
-#CHROM POS     ID        REF ALT    QUAL FILTER INFO                              FORMAT      NA00001        NA00002        NA00003
-Merlin  170   rs6054257   G   A   29  PASS    NS=3;DP=14;AF=0.5;DB;H2 GT:GQ:DP:HQ 0|0:48:1:51,51  1|0:48:8:51,51  1/1:43:5:.,.
-Merlin  1020   .   T   A   3   q10 NS=3;DP=11;AF=0.017 GT:GQ:DP:HQ 0|0:49:3:58,50  0|1:3:5:65,3    0/0:41:3
-Merlin  3445 rs6040355   A   G,T 67  PASS    NS=2;DP=10;AF=0.333,0.667;AA=T;DB   GT:GQ:DP:HQ 1|2:21:6:23,27  2|1:2:0:18,2    2/2:35:4
-Merlin  5050 .   T   .   47  PASS    NS=3;DP=13;AA=T GT:GQ:DP:HQ 0|0:54:7:56,60  0|0:48:4:51,51  0/0:61:2
-Merlin  20000 microsat1   GTCT    G,GTACT 50  PASS    NS=3;DP=9;AA=G  GT:GQ:DP    0/1:35:4    0/2:17:2    1/1:40:3
+##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype	Quality">
+##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read	Depth">
+##FORMAT=<ID=HQ,Number=2,Type=Integer,Description="Haplotype	Quality">
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	NA00001	NA00002	NA00003
+Merlin	170	rs6054257	G	A	29	PASS	NS=3;DP=14;AF=0.5;DB;H2	GT:GQ:DP:HQ	0|0:48:1:51,51	1|0:48:8:51,51	1/1:43:5:.,.
+Merlin	1020	.	T	A	3	q10	NS=3;DP=11;AF=0.017	GT:GQ:DP:HQ	0|0:49:3:58,50	0|1:3:5:65,3	0/0:41:3
+Merlin	3445	rs6040355	A	G,T	67	PASS	NS=2;DP=10;AF=0.333,0.667;AA=T;DB	GT:GQ:DP:HQ	1|2:21:6:23,27	2|1:2:0:18,2	2/2:35:4
+Merlin	5050	.	T	.	47	PASS	NS=3;DP=13;AA=T	GT:GQ:DP:HQ	0|0:54:7:56,60	0|0:48:4:51,51	0/0:61:2
+Merlin	20000	microsat1	GTCT	G,GTACT	50	PASS	NS=3;DP=9;AA=G	GT:GQ:DP	0/1:35:4	0/2:17:2	1/1:40:3