runEdgeRTests {treekoR} | R Documentation

## runEdgeRTests

### Description

This function runs edgeR using the treekoR inputs across all nodes of the hierarchical tree of clusters, adapted from the diffcyt workflow

### Usage

    runEdgeRTests(td, clusters, samples, classes, pos_class_name)

### Arguments

`td` | a dataframe of data from ggtree object
`clusters` | a vector representing the cell type or cluster of each cell (can be character or numeric). If numeric, cluster names need to be consecutive starting from 1.
`samples` | a vector identifying the patient each cell belongs to
`classes` | a vector containing the patient outcome/class each cell belongs to

### Value

a dataframe with pvalues, test statistic (signed -log10(p)), and FDR

[Package treekoR version 1.2.1 Index]