pheatmapTargets2: Plot heatmap(s) of gene expression using different distance...

In peterjuv/FunGenPipe: Tools for building function genomics pipelines

Description

Plot heatmap(s) of gene expression using different distance calculation methods.

Usage

pheatmapTargets2(
  expLog2,
  targets,
  methods = c("manhattan", "euclidean"),
  colorsFrom = "color_",
  namesFrom = NULL,
  filePath = NULL,
  width = 7,
  height = 7,
  treeheight_row = 0,
  ...
)

Arguments

expLog2	Expression matrix (preferably in log2 scale) with genes in rows and samples in named columns
targets	Phenotype data with columns with colors, e.g., color_Sex
methods	List of methods for distance calulation, individually passed to stats::dist(..., method)
colorsFrom	String passed to getColPats2
namesFrom	Variable passed to getColPats2
filePath	NULL or character; if given, output a PDF; default NULL
width	PDF width
height	PDF height
treeheight_row	Passed to pheatmap; default 0; 50 for pheatmap
...	Passed to pheatmap

Value

ggplot2 object and PDF if filePath is given

peterjuv/FunGenPipe documentation built on June 18, 2021, 3:38 a.m.