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Remove unnecessary arguments and add plots by group (thesis) #5

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@R-Walmsley
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I believe this PR:

  • tidies up some of the helper functions (ensuring that doing so does not change their outputs). See Some passed arguments are useless #4.
  • adds a couple of additional analyses which were done for reporting in my thesis.

I am not merging it so as to leave main as close as possible to what was used in the paper.

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