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']
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).
Returns
-------
visualization : Visualization
