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Refactor_loading_tabix #311

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Refactor_loading_tabix #311

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Commits on Jan 18, 2024

  1. add more failing tests for loading of tabix

    @alexg9010
    alexg9010 committed Jan 18, 2024
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  2. extract tabix indexing into separate function

    @alexg9010
    alexg9010 committed Jan 18, 2024
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  3. refactor function readTabixHeader into parseTabixHeader 

    - remove reading of header from file
- process only given header as character vector
    @alexg9010
    alexg9010 committed Jan 18, 2024
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  4. rename function checkTabixHeader into readTabixHeader 

    - this will only return the header character vector
- also does some file check beforehand
    @alexg9010
    alexg9010 committed Jan 18, 2024
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  5. introduce new function checkTabixFile 

    - function verifies that the file and associated index exist
- creates index if missing
    @alexg9010
    alexg9010 committed Jan 18, 2024
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  6. update vignette to use new 

    methylKit:::readTabixHeader function
    @alexg9010
    alexg9010 committed Jan 18, 2024
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  7. update readMethylDB to use new functions

    @alexg9010
    alexg9010 committed Jan 18, 2024
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  8. refactor and update readMethylDiffDB

    @alexg9010
    alexg9010 committed Jan 18, 2024
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  9. refactor and update readMethylBaseDB

    @alexg9010
    alexg9010 committed Jan 18, 2024
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  10. refactor and update readMethylRawDB

    @alexg9010
    alexg9010 committed Jan 18, 2024
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