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Overview

We expect a feature_selection HDF5 group at the root of the file, containing statistics for highly variable gene detection from the RNA data. The group itself contains the parameters and results subgroups. In multi-modal contexts, the results here are only relevant for the RNA modality.

Definitions:

  • num_genes: number of genes in the RNA expression matrix.

Parameters

parameters should contain:

  • span: a scalar float specifying the span to use for the LOWESS smoother. This should lie between 0 and 1.

Results

results should contain:

  • means: a 1-dimensional float dataset of length equal to num_genes, containing the mean log-expression of each gene.
  • vars: a 1-dimensional float dataset of length equal to num_genes, containing the variance in log-expression of each gene.
  • fitted: a 1-dimensional float dataset of length equal to num_genes, containing the fitted value of the trend for each gene.
  • resids: a 1-dimensional float dataset of length equal to num_genes, containing the residuals from the trend for each gene.

History

Added in version 1.0.