format_heatmap: Wrapper to format heamap from defined GNPS-MZmine inputs

In computational-chemical-biology/motifHeat:

Description

This function allows you to subset tables, create multiple colored bars for samples, change color scales, etc.

Usage

format_heatmap(featureTable, metadataTable, norm = FALSE, labCol = c(),
  selectField = NULL, selectValue = NULL, factorColList = list(),
  colorScale = rev(heat.colors(75)), main = "", ...)

Arguments

featureTable	MZmine format feature table.
metadataTable	qiime2 format metadata table.
norm	perform TIC normalization. Default is FALSE.
labCol	two colunms data.frame with feature indexes and labels for heatmap column. Default is c().
selectField	metadata field to subselect. Default is NULL.
selectValue	metadata field value to subselect. Default is NULL.
factorColList	nested list containing lists of: a vector of colors, one for each factor level, and a string with a metadata field name. Default is list().
colorScale	hexadecimal vector of colors. Default is heat.colors(75).
main	title for heatmap plot. Default is ”.

Value

heatmap and color list.

computational-chemical-biology/motifHeat documentation built on Feb. 3, 2020, 12:11 a.m.