leafToNodeMedians: Return mean node expression

In AllenInstitute/mfishtools: Building Gene Sets and Mapping mFISH Data

Return mean node expression

Description

Define expression at a node as the MEAN expression for each leaf as default (using the median removes all specific marker genes!)

Usage

leafToNodeMedians(dend, medianDat, branches = getBranchList(dend), fnIn = mean)

Arguments

dend	dendrogram for mapping. Ignored if medianDat is passed
medianDat	median expression data at each node
branches	a particular format of branch information from the dendrogram structure
fnIn	function to use to wrap up to the node level (default = mean)

Value

a matrix of mean node expression (rows=genes, columns=nodes)

AllenInstitute/mfishtools documentation built on July 5, 2023, 4:20 p.m.