plot_heatmap: Draw heatmap

In PoisonAlien/peakseason: Functions for faster ChIP/ATAC-seq analysis and visualization.

Description

Draw heatmap

Usage

plot_heatmap(mat_list, sortBy = "mean", rcb_pal = "Blues",
  sample_names = NULL, title_size = 0.8, top_profile = FALSE,
  zmins = NULL, zmaxs = NULL, scale = FALSE, file_name = NULL,
  hm_width = NULL, hm_height = 12, ...)

Arguments

mat_list	Input matrix list generated by extract_matrix
sortBy	Sort matrix by.., Can be mean, median. Default mean.
rcb_pal	Color palettte to use. RColorBrewer::display.brewer.all() to see available palettes
title_size	size of title. Default 0.8
top_profile	Boolean. Whether to draw top profile plot.
zmins	Manually specify min scores to include in heatmap
zmaxs	Manually specify max scores to include in heatmap
scale	Whether to row scale the matrix. Default FALSE
file_name	Default NULL. If provided saves plot as a tiff.
hm_width	Width of the plot
hm_height	Height of the plot
sample_bames	Manually specifcy sample names.

Details

This function takes output from extract_matrix and draws a heatmap

Value

If matrix was generated with 'k', returns BED file with cluster informartion

PoisonAlien/peakseason documentation built on May 14, 2019, 4:01 a.m.