calcDatasetSpecificity: Calculate a dataset-specificity score for each factor

In rliger: Linked Inference of Genomic Experimental Relationships

Calculate a dataset-specificity score for each factor

Description

This score represents the relative magnitude of the dataset-specific components of each factor's gene loadings compared to the shared components for two datasets. First, for each dataset we calculate the norm of the sum of each factor's shared loadings (W) and dataset-specific loadings (V). We then determine the ratio of these two values and subtract from 1... TODO: finish description.

Usage

calcDatasetSpecificity(
  object,
  dataset1,
  dataset2,
  doPlot = FALSE,
  do.plot = doPlot
)

Arguments

object	liger object with factorization results.
dataset1	Name of first dataset. Required.
dataset2	Name of second dataset. Required.
doPlot	Logical. Whether to display a barplot of dataset specificity scores (by factor). Default FALSE.
do.plot	Deprecated. Use doPlot instead.

Value

List containing three elements.

pct1	Vector of the norm of each metagene factor for dataset1.
pct2	Vector of the norm of each metagene factor for dataset2.
pctSpec	Vector of dataset specificity scores.

rliger documentation built on Oct. 30, 2024, 1:07 a.m.