plot_ratios: Plot ratios as heatmap and save as .png

In sgrote/NanoStringNormalizeR: Normalize all NanoString .RCC files in a directory

Description

Created png-file with heatmap of log2-ratios, like those created by norm_fc. The png-file is in the same folder as the input, with "_heatmap.png" extension.

Usage

plot_ratios(ratio_csv, title="normalized ratios", size_title=1, size_legend=0.8, size_row_names=0.7, size_col_names=0.8, mar_below=18, mar_right=6, png_width=20, png_height=24, dendrogram="both", Rowv=TRUE, Colv=TRUE)

Arguments

ratio_csv	character(), .csv file with ratios, like ratio.csv which is created by norm_fc, or a subset of it
title	optional character() for the plot title
size_title	optional numeric() for the size of the plot title
size_legend	optional numeric() for the size of the legend
size_row_names	optional numeric() for the size of the row names
size_col_names	optional numeric() for the size of the column names
mar_below	optional numeric() for the size of the margin below the heatmap (for column names)
mar_right	optional numeric() for the size of the margin on the right side of the heatmap (for row names)
png_width	optional numeric() for the width of the .png output file
png_height	optional numeric() for the height of the .png output file
dendrogram	optional character() defining whether a dendrogram should be added. Possible values: "both" (default),"row","column","none"
Rowv	optional logical() defining whether rows should be reorderd by mean value
Colv	optional logical() defining whether columns should be reorderd by mean value

Value

invisible NULL Side effects: Creates png-file in the same folder as the ratio_csv, with "_heatmap.png" extension

Author(s)

Steffi Grote

sgrote/NanoStringNormalizeR documentation built on Dec. 30, 2020, 7:45 p.m.