Mercurial > repos > geert-vandeweyer > dc_genotyper
view DC_Genotyper_indexes.loc.sample @ 17:3ba482a2dd0e draft
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author | geert-vandeweyer |
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date | Mon, 29 Sep 2014 04:00:10 -0400 |
parents | a7e7f9b8f538 |
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#This is a sample file distributed with Galaxy that enables the DC_Genotyper #tool to locate genome files for use with twoBitToFa, and IGVtools. You will #need to supply these files and then create a DC_Genotyper.loc file #similar to this one (store it in this directory) that points to #the directories in which those files are stored. The DC_Genotyper.loc #file has this format (white space characters are TAB characters): # #<unique_build_id> <dbkey> <display_name> <2bit_path,IGVtools_genome.path> # #for example: # #hg19 hg19 Human (Homo sapiens): hg19 /depot/data2/galaxy/twobit/hg19.2bit,/depot/data2/galaxy/igvtools/hg19.chrom.sizes # #then your /depot/data2/galaxy/twobit/ directory #would need to contain the following 2bit files: # #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.2bit #-rw-r--r-- 1 james universe 269808 2005-09-13 10:12 mm9.2bit # # your igvtools folder needs the following files: # #-rw-r--r-- 1 james universe 527388 2005-09-13 10:12 hg19.chrom.sizes # # igv chrom.sizes files are tab delimited files. First column is chromosome name, second column is length. Additional columns are ignored. # example genome files are included in the installation location of the package_igvtools repository.