Change bar to area plot

[jwertz01]

No description provided.

[koisland]

Hi @jwertz01,

Thanks for the PR but I'd like to preserve the bar plot functionality as it's a less lossy representation of the input data. I'd be more willing to accept this change if you added a separate parameter like use_area or start_only to BarSettings.

CenPlot/cenplot/lib/track/settings.py

Line 126 in 6186968

class BarTrackSettings(DefaultTrackSettings):

class BarTrackSettings(DefaultTrackSettings): 
    # ...
    start_only: bool = False
    """
    Plot start position only. A smoother representation of data.
    NOTE: This will result in the last interval's end position being ignored.
    """

Then, add a branch here to switch.

CenPlot/cenplot/lib/draw/bar.py

Lines 48 to 54 in 6186968

	ax.bar(
	track.data["chrom_st"],
	track.data["name"],
	track.data["chrom_end"] - track.data["chrom_st"],
	label=label,
	**plot_options,
	)

if track.options.start_only:
     ax.fill_between( 
         track.data["chrom_st"], 
         track.data["name"], 
         0, 
         label=label, 
         **plot_options, 
     ) 
else:
     ax.bar( 
         track.data["chrom_st"], 
         track.data["name"], 
         track.data["chrom_end"] - track.data["chrom_st"], 
         label=label, 
         **plot_options, 
     )