Plots a violin plot of bin distribution of a set of bigWig files optionally overlaid with annotated bins. Bins overlapping loci of the provided BED file will be shown as a jitter plot on top of the violin plot.
Usage
plot_gr_violin(
gr,
columns,
highlight = NULL,
minoverlap = 0L,
highlight_label = NULL,
highlight_colors = NULL,
remove_top = 0,
verbose = TRUE,
selection = NULL
)Arguments
- gr
Scored GRanges object
- columns
Columns in gr to plot
- highlight
BED file to use as highlight for subgroups.
- minoverlap
Minimum overlap required for a bin to be highlighted.
- highlight_label
Label for the highlighted loci set
- highlight_colors
Array of color values for the highlighted groups.
- remove_top
Return range 0-(1-remove_top). By default returns the whole distribution (remove_top == 0).
- verbose
Put a caption with relevant parameters on the plot.
- selection
A GRanges object to restrict binning to a certain set of intervals. This is useful for debugging and improving performance of locus specific analyses.