projectionDriveR: projectionDriveR

In genesofeve/ProjectR: Functions for the projection of weights from PCA, CoGAPS, NMF, correlation, and clustering

projectionDriveR

Description

Calculate weighted expression difference between two groups (group1 - group2)

Usage

projectionDriveR(
  cellgroup1,
  cellgroup2,
  loadings,
  pattern_name,
  loadingsNames = NULL,
  pvalue = 1e-05,
  display = TRUE,
  normalize_pattern = TRUE,
  mode = "CI"
)

Arguments

cellgroup1	gene x cell count matrix for cell group 1
cellgroup2	gene x cell count matrix for cell group 2
loadings	A matrix of continuous values defining the features
pattern_name	column of loadings for which drivers will be calculated
loadingsNames	a vector with names of loading rows defaults to rownames
pvalue	confidence level. Default 1e-5
display	boolean. Whether or not to display confidence intervals
normalize_pattern	Boolean. Whether or not to normalize pattern weights
mode	statistical approach, confidence intervals or pvalues. default CI

Value

A list with unweighted/weighted mean differences and differential genes that meet the provided signficance threshold.

genesofeve/ProjectR documentation built on Nov. 16, 2024, 8:20 p.m.