Mercurial > repos > iuc > cnvkit_antitarget

diff test-data/sample.cnv.vcf @ 4:98a7ce7d42b8 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cnvkit commit 51995527835d18a4a3a498b140382ce433f19a71
author: iuc
date: Mon, 20 Jan 2025 16:41:44 +0000
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sample.cnv.vcf	Mon Jan 20 16:41:44 2025 +0000
@@ -0,0 +1,21 @@
+##fileformat=VCFv4.2
+##fileDate=20250120
+##source=CNVkit v0.9.11
+##INFO=<ID=CIEND,Number=2,Type=Integer,Description="Confidence interval around END for imprecise variants">
+##INFO=<ID=CIPOS,Number=2,Type=Integer,Description="Confidence interval around POS for imprecise variants">
+##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the variant described in this record">
+##INFO=<ID=IMPRECISE,Number=0,Type=Flag,Description="Imprecise structural variation">
+##INFO=<ID=SVLEN,Number=1,Type=Integer,Description="Difference in length between REF and ALT alleles">
+##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
+##INFO=<ID=FOLD_CHANGE,Number=1,Type=Float,Description="Fold change">
+##INFO=<ID=FOLD_CHANGE_LOG,Number=1,Type=Float,Description="Log fold change">
+##INFO=<ID=PROBES,Number=1,Type=Integer,Description="Number of probes in CNV">
+##ALT=<ID=DEL,Description="Deletion">
+##ALT=<ID=DUP,Description="Duplication">
+##ALT=<ID=CNV,Description="Copy number variable region">
+##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
+##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype quality">
+##FORMAT=<ID=CN,Number=1,Type=Integer,Description="Copy number genotype for imprecise events">
+##FORMAT=<ID=CNQ,Number=1,Type=Float,Description="Copy number genotype quality for imprecise events">
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	SampleID
+chrM	848	.	N	<DEL>	.	.	IMPRECISE;SVTYPE=DEL;END=16023;SVLEN=-15175;FOLD_CHANGE=0.38153306589201086;FOLD_CHANGE_LOG=-1.39012;PROBES=54	GT:GQ	0/1:54