plot_htmp: Plot Heatmap

In manschmi/RMetaTools: Tools For Metagene Analysis

Description

Heatmap of specified tidy metagene tbl.

Usage

plot_htmp(tbl, color_by = "value", do_interpolate = FALSE)

Arguments

tbl	tidy metagene tbl
color_by	name of column from tbl to use as value (default='value')
do_interpolate	interpolate geom_raster output (default=FALSE)

Details

uses ggplot2 to create plot of the heatmap

Value

ggplot2 object

Examples

bedfile <- system.file("extdata", "Chen_PROMPT_TSSs_liftedTohg38.bed", package = "RMetaTools")
bw_plus <- system.file("extdata", "GSM1573841_mNET_8WG16_siLuc_plus_hg38.bw", package = "RMetaTools")
bw_minus <- system.file("extdata", "GSM1573841_mNET_8WG16_siLuc_minus_hg38.bw", package = "RMetaTools")
anno=bedfile;anchor='center';upstream=1000;downstream=1000;window_size=10
collapse_fun = rowMeans;negate_neg_strand_values=FALSE
metamat <- metagene_matrix(bw_plus, bw_minus, bedfile, anchor, upstream, downstream, window_size)
plot_htmp(metamat, color_by='value', do_interpolate=FALSE)

#log2 values incl pseudocount
metamat %<>% mutate(log2_value = log2(value+1))
plot_htmp(metamat, color_by='log2_value', do_interpolate=FALSE)

manschmi/RMetaTools documentation built on Dec. 14, 2021, 4:33 a.m.