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Updated diversity.py and added network_plots_gephi.py #53

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merged 6 commits into from
Jun 28, 2016

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@akshayparopkari akshayparopkari commented Jun 27, 2016

  • diversity.py updates:
    • Updated script parameters:
      • Added ability to write out sample IDs when user provides --save_calculations parameter.
      • Updated --image_type parameter for usage clarity while specifying image type for saving figures.
      • Added --show_available_metrics parameter for displaying alpha diversity metrics available for users to use. Addresses issue Alpha diversity #48.
    • Updated both significance testing functions for compatibility with new diversity calculation returned object.
    • Added checks valid, but not yet supported by PhyloToAST diversity metrics.
    • Updated imports and documentation.
  • Added new script - network_plots_gephi.py:

… provides '--save_calculations' parameter. Updated both significance testing functions. Removed '--x_label' parameter, improving the diversity nomenclature in figures as well as significance test outputs. Updated imports.

Updated '--image_type' parameter for usage clarity while specifying image type for saving figures.
…splaying alpha diversity metrics available for users to use. Addresses smdabdoub#48.
@akshayparopkari akshayparopkari mentioned this pull request Jun 28, 2016
@akshayparopkari akshayparopkari changed the title Updated diversity.py. Updated diversity.py and added network_plots_gephi.py Jun 28, 2016
@smdabdoub smdabdoub merged commit d5ddf49 into smdabdoub:master Jun 28, 2016
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