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distance-matrix: Create a distance matrix from a numeric Metadata column¶
Docstring:
Usage: qiime metadata distance-matrix [OPTIONS] Create a distance matrix from a numeric metadata column. The Euclidean distance is computed between each pair of samples or features in the column. Tip: the distance matrix produced by this method can be used as input to the Mantel test available in `q2-diversity`. Parameters: --m-metadata-file METADATA --m-metadata-column COLUMN MetadataColumn[Numeric] Numeric metadata column to compute pairwise Euclidean distances from [required] Outputs: --o-distance-matrix ARTIFACT DistanceMatrix [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.
Import:
from qiime2.plugins.metadata.methods import distance_matrix
Docstring:
Create a distance matrix from a numeric Metadata column Create a distance matrix from a numeric metadata column. The Euclidean distance is computed between each pair of samples or features in the column. Tip: the distance matrix produced by this method can be used as input to the Mantel test available in `q2-diversity`. Parameters ---------- metadata : MetadataColumn[Numeric] Numeric metadata column to compute pairwise Euclidean distances from Returns ------- distance_matrix : DistanceMatrix