branch_differential_expression: differential expression in specific branch

Description Usage Arguments Value

View source: R/StatisticalTests.R

Description

Given an elastic tree it calculates genes that are differentially expressed in a particular branch in the tree

Usage

1
2
branch_differential_expression(Branch, EmbeddedTree, mode = c("tree",
  "cells"))

Arguments

Branch

It is a vector containing the indexes of cells to be part of the first Subpopulation

EmbeddedTree

Embedded Elastic Tree as calculated by GenesSpaceEmbedding()

mode

whether the cell expression profiles or the tree nodes expression profiles will be taken into account for the test. "cells" uses the expression values from the cells. "tree"

Value

genes_significances list object containing the p-values ($pvals) and e-values ($evals) vectors for the kruskall wallis test ordered from the highest significance to the lowest one. A vector containing the gene names ($GeneName) ordered as the significances vector is also provided. Another vector ($indexes) containing the original index order for genes in the columns from the expression matrix is also provided.


soedinglab/merlot documentation built on June 28, 2020, 9:36 a.m.