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annotate test-data/sv.vcf @ 1:06d22a2d3c64 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit ab4afb50e6c991cc2e784a93a0c7a75329eac88c
author iuc
date Mon, 27 Jun 2022 11:22:11 +0000
parents b59546214e63
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
parents:
diff changeset
1 ##fileformat=VCFv4.1
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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2 ##source=htsbox-abreak-r327
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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3 ##reference=/tmp/tmpIcvwsb/files/000/dataset_2.dat
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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4 ##contig=<ID=11_1910000_1940000,length=30001>
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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5 ##ALT=<ID=DEL,Description="Deletion">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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6 ##ALT=<ID=INS,Description="Insertion">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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7 ##INFO=<ID=SVLEN,Number=1,Type=Integer,Description="SV length">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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8 ##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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9 ##INFO=<ID=END,Number=1,Type=Integer,Description="End coordinate of this variant">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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10 ##INFO=<ID=QGAP,Number=1,Type=Integer,Description="Length of gap on the query sequence">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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11 ##INFO=<ID=MINMAPQ,Number=1,Type=Integer,Description="Min flanking mapping quality">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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12 ##INFO=<ID=MINSC,Number=1,Type=Integer,Description="Min flanking alignment score">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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13 ##INFO=<ID=MINTIPQ,Number=1,Type=Integer,Description="Min quality/depth flanking the break point">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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14 ##FILTER=<ID=LowSupp,Description="MINTIPQ < 10">
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
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15 #CHROM POS ID REF ALT QUAL FILTER INFO
b59546214e63 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fermikit commit 16dcfc0fb84fad80fcf18417ae46c5499c96147a
iuc
parents:
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16 11_1910000_1940000 5276 . C <DEL> 30 . SVTYPE=DEL;END=26956;SVLEN=21678;QGAP=3;MINMAPQ=60;MINSC=793;MINTIPQ=23