da-barplot: Differential abundance bar plots¶

Docstring:

Usage: qiime composition da-barplot [OPTIONS]

  Generate bar plot views of ANCOM-BC output. One plot will be present per
  column in the ANCOM-BC output. The `significance_threshold`,
  `effect_size_threshold` and `feature_ids` filter results are intersected,
  such that only features that remain after all three filters have been
  applied will be present in the output.

Inputs:
  --i-data ARTIFACT FeatureData[DifferentialAbundance]
                         The ANCOM-BC output to be plotted.         [required]
Parameters:
  --p-effect-size-label TEXT
                         Label for effect sizes in `data`.    [default: 'lfc']
  --p-feature-id-label TEXT
                         Label for feature ids in `data`.      [default: 'id']
  --p-error-label TEXT   Label for effect size errors in `data`.
                                                               [default: 'se']
  --p-significance-label TEXT
                         Label for statistical significance level in `data`.
                                                            [default: 'q_val']
  --p-significance-threshold PROPORTION Range(0.0, 1.0, inclusive_end=True)
                         Exclude features with statistical significance level
                         greater (i.e., less significant) than this threshold.
                                                                [default: 1.0]
  --p-effect-size-threshold NUMBER
    Range(0.0, None)     Exclude features with an absolute value of effect
                         size less than this threshold.         [default: 0.0]
  --m-feature-ids-file METADATA...
    (multiple            Exclude features if their ids are not included in
     arguments will be   this index.
     merged)                                                        [optional]
  --p-level-delimiter TEXT
                         If feature ids encode hierarchical information,
                         split the levels when generating feature labels in
                         the visualization using this delimiter.    [optional]
  --p-label-limit INTEGER
                         Set the maximum length that will be viewable for
                         axis labels. You can set this parameter if your axis
                         labels are being cut off.                  [optional]
Outputs:
  --o-visualization VISUALIZATION
                                                                    [required]
Miscellaneous:
  --output-dir PATH      Output unspecified results to a directory
  --verbose / --quiet    Display verbose output to stdout and/or stderr
                         during execution of this action. Or silence output if
                         execution is successful (silence is golden).
  --example-data PATH    Write example data and exit.
  --citations            Show citations and exit.
  --use-cache DIRECTORY  Specify the cache to be used for the intermediate
                         work of this action. If not provided, the default
                         cache under $TMP/qiime2/ will be used.
                         IMPORTANT FOR HPC USERS: If you are on an HPC system
                         and are using parallel execution it is important to
                         set this to a location that is globally accessible to
                         all nodes in the cluster.
  --help                 Show this message and exit.