qiime_gneiss_balance-taxonomy.xml - This file requires an entry in the tool_data_table_conf.xml file. Upload a file named tool_data_table_conf.xml.sample to the repository that includes the required entry to correct this error.

qiime gneiss balance-taxonomy (version 2019.4)

--i-table: ARTIFACT FeatureTable[Frequency] A table of abundances. [required]:

--i-tree: ARTIFACT The tree used to calculate the balances. Hierarchy [required]:

--i-taxonomy: ARTIFACT FeatureData[Taxonomy] Taxonomy information for the OTUs. [required]:

--p-balance-name: TEXT Name of the balance to summarize. [required]:

--p-pseudocount: NUMBER The pseudocount to add to avoid division by zero. [default: 0.5]:

--p-taxa-level: INTEGER Level of taxonomy to summarize. [default: 0]:

--p-n-features: INTEGER The number of features to plot in the proportion plot. [default: 10]:

--p-threshold: NUMBER A threshold to designate discrete categories for a numerical metadata column. This will split the numerical column values into two categories, values below the threshold, and values above the threshold. If not specified, this threshold will default to the mean. [optional]:

--m-metadata-column: COLUMN MetadataColumn[Categorical | Numeric] Metadata column for plotting the balance (optional). [optional]:

--m-metadata-file METADATA:

Balance Summary

Visualize the distribution of a single balance and summarize its numerator and denominator components.

Parameters

table : FeatureTable[Frequency]: A table of abundances.
tree : Hierarchy: The tree used to calculate the balances.
taxonomy : FeatureData[Taxonomy]: Taxonomy information for the OTUs.
balance_name : Str: Name of the balance to summarize.
pseudocount : Float, optional: The pseudocount to add to avoid division by zero.
taxa_level : Int, optional: Level of taxonomy to summarize.
n_features : Int, optional: The number of features to plot in the proportion plot.
threshold : Float, optional: A threshold to designate discrete categories for a numerical metadata column. This will split the numerical column values into two categories, values below the threshold, and values above the threshold. If not specified, this threshold will default to the mean.
metadata : MetadataColumn[Categorical | Numeric], optional: Metadata column for plotting the balance (optional).

Returns

visualization : Visualization