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1 #This is a sample file distributed with Galaxy that enables the DC_Genotyper
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2 #tool to locate bgzip-compressed and indexed versions of dbSNP. You will
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3 #need to supply these files and then create a dbsnp_indexes.loc file
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4 #similar to this one (store it in this directory) that points to
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5 #the directories in which those files are stored. The dbsnp_indexes.loc
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6 #file has this format (white space characters are TAB characters):
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7 #
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8 #<unique_build_id> <display_name> </path/to/dbSNP.vcf.bgz>
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9 #
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10 #for example:
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11 #
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12 #hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/dbsnp/dbsnp_137.hg19.vcf.bgz
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13 #hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/dbsnp/dbsnp_138.hg19.vcf.bgz
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14 #mm9 Mouse (Mus musculus): mm9 /depot/data2/galaxy/dbsnp/dbsnp_128.mm9.vcf.bgz
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15 #
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16 #then your /depot/data2/galaxy/dbsnp/ directory
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17 #would need to contain the following files:
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18 #
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19 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_137.hg19.vcf.bgz
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20 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_137.hg19.vcf.bgz.tbi
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21 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_138.hg19.vcf.bgz
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22 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_138.hg19.vcf.bgz.tbi
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23 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_128.mm9.vcf.bgz
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24 #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 dbsnp_128.mm9.vcf.bgz.tbi
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