# anova: ANOVA testΒΆ

#### Docstring:

Usage: qiime longitudinal anova [OPTIONS] Perform an ANOVA test on any factors present in a metadata file and/or metadata-transformable artifacts. This is followed by pairwise t-tests to examine pairwise differences between categorical sample groups. Parameters: --m-metadata-file METADATA... (multiple Sample metadata containing formula terms. arguments will be merged) [required] --p-formula TEXT R-style formula specifying the model. All terms must be present in the sample metadata or metadata-transformable artifacts and can be continuous or categorical metadata columns. Formulae will be in the format "a ~ b + c", where "a" is the metric (dependent variable) and "b" and "c" are independent covariates. Use "+" to add a variable; "+ a:b" to add an interaction between variables a and b; "*" to include a variable and all interactions; and "-" to subtract a particular term (e.g., an interaction term). See https://patsy.readthedocs.io/en/latest/formulas.html for full documentation of valid formula operators. Always enclose formulae in quotes to avoid unpleasant surprises. [required] --p-sstype TEXT Choices('I', 'II', 'III') Type of sum of squares calculation to perform (I, II, or III). [default: 'II'] --p-repeated-measures / --p-no-repeated-measures Perform ANOVA as a repeated measures ANOVA. Implemented via statsmodels, which has the following limitations: Currently, only fully balanced within-subject designs are supported. Calculation of between-subject effects and corrections for violation of sphericity are not yet implemented. [default: False] --p-individual-id-column TEXT The column containing individual ID with repeated measures to account for.This should not be included in the formula. [optional] --p-rm-aggregate / --p-no-rm-aggregate If the data set contains more than a single observation per individual id and cell of the specified model, this function will be used to aggregate the data by the mean before running the ANOVA. Only applicable for repeated measures ANOVA. [default: False] 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. --help Show this message and exit.

#### Import:

```
from qiime2.plugins.longitudinal.visualizers import anova
```

#### Docstring:

ANOVA test Perform an ANOVA test on any factors present in a metadata file and/or metadata-transformable artifacts. This is followed by pairwise t-tests to examine pairwise differences between categorical sample groups. Parameters ---------- metadata : Metadata Sample metadata containing formula terms. formula : Str R-style formula specifying the model. All terms must be present in the sample metadata or metadata-transformable artifacts and can be continuous or categorical metadata columns. Formulae will be in the format "a ~ b + c", where "a" is the metric (dependent variable) and "b" and "c" are independent covariates. Use "+" to add a variable; "+ a:b" to add an interaction between variables a and b; "*" to include a variable and all interactions; and "-" to subtract a particular term (e.g., an interaction term). See https://patsy.readthedocs.io/en/latest/formulas.html for full documentation of valid formula operators. Always enclose formulae in quotes to avoid unpleasant surprises. sstype : Str % Choices('I', 'II', 'III'), optional Type of sum of squares calculation to perform (I, II, or III). repeated_measures : Bool, optional Perform ANOVA as a repeated measures ANOVA. Implemented via statsmodels, which has the following limitations: Currently, only fully balanced within-subject designs are supported. Calculation of between- subject effects and corrections for violation of sphericity are not yet implemented. individual_id_column : Str, optional The column containing individual ID with repeated measures to account for.This should not be included in the formula. rm_aggregate : Bool, optional If the data set contains more than a single observation per individual id and cell of the specified model, this function will be used to aggregate the data by the mean before running the ANOVA. Only applicable for repeated measures ANOVA. Returns ------- visualization : Visualization