geneExpressionHeatmap: Creating Gene Expression Heatmaps

In polyak-lab/felipeCommonFunctions: Felipe Common Functions

Description

Beautiful heatmap creator

Usage

geneExpressionHeatmap(expressionMatrix, genesOfInterest, samples,
  annotationDataFrame, clusterColumns = T, clusterRows = T, fontSize,
  kMeans = 1, title = character(0), annotationArguments = NULL, filename,
  palettes = c("Set1", "Dark2", "Set2", "Set3", "Accent", "Paired", "Pastel1",
  "Pastel2"), ...)

Arguments

expressionMatrix	Matrix with genes as rows and samples as columns
genesOfInterest	Vector of genes to be put on a heatmap
samples	(optional) Indexing vector if only want to visualize a subset of samples. Can also be the sample names
annotationDataFrame	Data frame with categories (clusters, groups, etc) that can be used to annotate a heatmap. Rows should be sample names and each column represents an annotation
fontSize	Global font size
kMeans	(optional) Number of k-means used to cluster rows
title	(optional) Heatmap Title
annotationArgumnets	(optional) List with further annotation parameters if needed

Value

hm, a heatmap object

Author(s)

Felipe Flores

polyak-lab/felipeCommonFunctions documentation built on May 26, 2019, 12:32 a.m.