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Repository of bioinformatics tools for the pipelines module
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Janis - Bioinformatics

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This repository contains tools and data types for Janis directly related to the bioinformatics field.

Refer to the documentation.

Data types

The data types are a way of encapsulating information about the file (including secondary files), and it allows clarity when connecting inputs and steps together (as you know a BAM file should be connected to BAM input).


Documentation is generated on Janis. To generate new documentation you will need to:

  1. Commit your changes here,
  2. Update the submodule pointer on Janis,
  3. Checkout Janis (recursively),
  4. Run the regenerate script janis/docs/,
  5. Commit these changes and the documentation will autobuild on ReadTheDocs.
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