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Add optional configurable cloud_level parameter (related to #65)#68

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Add optional configurable cloud_level parameter (related to #65)#68
AlexPGroot wants to merge 4 commits into
iferres:masterfrom
AlexPGroot:master

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Add optional configurable cloud_level parameter (related to #65)

This pull request adds a cloud_level to PgR6.R, allowing for the user to have more control over what is considered the cloud genome:

  • It adds .cloud_level to private.
  • It adds $cloud_level to public, which is by default set to "singleton" to keep functionality as originally intended.
  • Allows for the user to edit $cloud_level by using pg$cloud_level <- ("singleton"|"single"|"s") or numeric value such as15
  • Changes the calculation from singleton to cutoff based, similar to how core_genes is calculated.

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