plot_RNA_bedgraph: RNA bedgraph plotter
In RubD/GeTrackViz2:

Description Usage Arguments Value Examples

This function plots RNA bedgraph data

plot_RNA_bedgraph(rna_bdg, name_rna_bdg, color_rna_bdg, mychr, start_loc,
  end_loc, binsize = 100, breaks_wanted = 4, y_title = "RPKM",
  chrom_col = "chr", start_col = "start", end_col = "end",
  counts_col = "RPKM", strand_col = NA, min_strand_sign = "-",
  plus_strand_sign = "+", make_minus_strand_negative = T,
  forced_y_min = NULL, forced_y_max = NULL, axis_line_size = 0.2,
  marginvec_mm = c(0, 0, 0, 0), use_barplot = F, alpha_fill = 0.7,
  reverse_strand = FALSE, show_labels = F, print_plot = F)

`rna_bdg`	bedgraph file for RNA expression data
`name_rna_bdg`	name of sample
`color_rna_bdg`	color of track
`mychr`	chromosome
`start_loc`	start location on chromomse
`end_loc`	end location on chromosome
`binsize`	size of bin
`breaks_wanted`	number of breaks on x-axis
`y_title`	title for y-axis
`chrom_col`	column name for chromosomes
`start_col`	column name for start
`end_col`	column name for end
`counts_col`	column name with counts
`strand_col`	column name with strand info, default = NA
`min_strand_sign`	minus strand sign, default = '-'
`plus_strand_sign`	plus strand sign, default = '+'
`make_minus_strand_negative`	reverse strand
`forced_y_min`	hard minimum y-axis value
`forced_y_max`	hard maximum y-axis value
`axis_line_size`	line size of x-axis
`marginvec_mm`	margin around plot, default = c(0,0,0,0)
`use_barplot`	plot track as barplot, default = F
`alpha_fill`	alpha for lineplot, default = 1
`reverse_strand`	boolean: flip strand x-axis direction
`show_labels`	boolean: show x-axis lables
`print_plot`	boolean: print individual plot