Compositions (chamois.compositions)

Transformation of chamois.model objects into compositional data.

This module contains helper functions to transform objects from the object model in chamois.model into compositional data suitable to pass to the fit and predict methods of ChemicalOntologyPredictor objects.

The compositional matrices are stored in AnnData objects to ensure that metadata related to the observations and features are retained along the actual binary indicator matrices.

Compositions

build_observations	Build an observation table from a list of cluster sequences.
build_variables	Build a variable table from an iterable of domains.
build_compositions	Build a compositional matrix from the given domain.