blockPlot: blockPlot

In xiaonui/metaFunc: An R package for comprehensive visualization of functional annotations by combining taxonomy

Description

The function blockPlot plots a combination Block Chart. The icicle plot in the upper is used to display taxonomic classification and each row is a taxonomic rank. The number in parentheses represents the number of genes. The bar charts in the lower exhibit function annotations and each row is a function. The length represents the number of genes, and the color represents the taxon which corresponds to the figure above.

Usage

blockPlot(func_data, tax_data, func_split = ";", split_percentage = 10,
show_func_topn = 20, rownames_size = 10, tax_name_size = 3,
legend_label_size = 10, avoid_label_overlap = T)

Arguments

func_data	A data frame contains functional annotation. The first column is the gene name, and the second column is the functional annotation.
tax_data	A data frame contains taxonomic classification. It needs to contain at least three columns. The first column is the gene, and the rest columns are the taxonomic classification.
gene_data	A data frame contains gene profile. The first column is the gene, and the rest columns are the gene profile (0 presents absence and positive number presents presence).
func_split	Separator for multiple functions.
show_func_topn	Show top n of functioanl functions.
split_percentage	Split percentage.
rownames_size	The size of rownames.
tax_name_size	The size of taxa.
sample_point_size	The size of sample points.
sample_point_alpha	The alpha channel for transparency of sample points.
block_alpha	The alpha channel for transparency of blocks.
legend_label_size	The size of legend labels.
avoid_label_overlap	If 'TRUE', the text labels repel away from each other.

Examples

library (metaFunc)
data(simple_demo)
blockPlot(func_data = simple_demo$func, tax_data = simple_demo$tax)

xiaonui/metaFunc documentation built on April 9, 2021, 9:50 a.m.