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annotate test-data/d.vcf @ 0:630e2929a131 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
author iuc
date Wed, 20 Jan 2021 19:49:40 +0000
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630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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1 ##fileformat=VCFv4.1
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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2 ##contig=<ID=1,length=400>
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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diff changeset
3 ##contig=<ID=2,length=400>
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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4 ##INFO=<ID=CHR2,Number=1,Type=String,Description="Chromosome for END coordinate in case of a translocation">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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5 ##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the structural variant">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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6 ##INFO=<ID=RE,Number=1,Type=Integer,Description="read support">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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7 ##INFO=<ID=PRECISE,Number=0,Type=Flag,Description="Precise structural variation">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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8 ##INFO=<ID=SVLEN,Number=1,Type=Integer,Description="Length of the SV">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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9 ##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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10 ##INFO=<ID=STRANDS,Number=A,Type=String,Description="Strand orientation of the adjacency in BEDPE format (DEL:+-, DUP:-+, INV:++/--)">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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11 ##INFO=<ID=IS_SPECIFIC,Number=1,Type=String,Description="Whether or not a variant has enough read support and length to be specific">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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12 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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13 chr1 100 1 CACGTACGTACGTACGTACGTACGTACTGACGT C . PASS PRECISE;CHR2=1;END=132;SVTYPE=DEL;SUPTYPE=AL;SVLEN=-32;STRANDS=+-;RE=12;IS_SPECIFIC=1 GT 1/1
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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14 chr1 205 2 C CACGTACGTACGTACGTACGTACGTACTGACGTACGTACGT . PASS PRECISE;CHR2=1;END=205;SVTYPE=INS;SUPTYPE=AL;SVLEN=40;STRANDS=+-;RE=10;IS_SPECIFIC=1 GT 1/1
630e2929a131 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/jasminesv/ commit eb5baa10589b31c422ec8b8980617a3f375608ad"
iuc
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15 chr1 300 3 N ]2:1000000]N . PASS PRECISE;CHR2=2;END=3000000;SVTYPE=BND;SUPTYPE=AL;SVLEN=1;STRANDS=-+;RE=15;IS_SPECIFIC=1 GT 1/1