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annotate tool-data/dbkeys.loc.sample @ 0:4cacc5b8001b draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
author pimarin
date Thu, 23 Feb 2023 09:50:24 +0000
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4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
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1 #This file lists the locations and dbkeys of all the genome files
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
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2 #See here for details: http://bedtools.readthedocs.io/en/latest/content/general-usage.html#genome-file-format
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
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3 #You can add elements to this data table using the data_manager_fetch_genome_dbkeys_all_fasta data manager.
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
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4 #Alternatively, index files created using samtools faidx (http://www.htslib.org/doc/faidx.html) contain 3 extra columns, but work fine.
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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5 #This file has the format (white space characters are TAB characters):
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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6 #
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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7 #<dbkey> <display_name> <file_path>
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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8 #
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
diff changeset
9 #So, dbkeys.loc could look something like this:
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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10 #
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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11 #apiMel3 Honeybee (Apis mellifera): apiMel3 /path/to/genome/apiMel3/apiMel3.len
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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12 #hg19 Human (Homo sapiens): hg19 Canonical /path/to/genome/hg19/hg19canon.len
4cacc5b8001b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools
pimarin
parents:
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13 #