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27
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1 categories:
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2 - Data Managers
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3 description: A tool to build ALFA indexes from automatically downloaded gtf annotation file
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4 long_description: |
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5 1. The tool asks the admin to enter a 'species_name' and automatically download the last release of the corresponding gtf annotation file on Ensembl.
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6 2. The tool calls ALFA to generate the alfa indexes from this gtf file.
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7 3. Resulting indexes are stored in the child directory 'alfa_indexes' of the dir <galaxy_data_manager_data_path> defined in config/galaxy.ini
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8 4. Finally, the tool adds the new entry to the table 'alfa_indexes.loc'. This .loc file is where the data table 'alfa_indexes' points, as defined in config/shed_tool_data_table.conf.xml
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9 5. At the end of the process, when a user will use alfa (https://toolshed.g2.bx.psu.edu/view/charles-bernard/alfa), the built-in indexes corresponding to the 'species_name' will be available
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10 name: data_manager_build_alfa_indexes
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11 owner: charles_bernard
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12 remote_repository_url: https://github.com/charles-bernard/Galaxy_tools/tree/master/data_manager_build_alfa_indexes
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13 type: unrestricted |
