itpseq.Sample.itp_len_plot

Sample.itp_len_plot(ax=None, min_codon=0, max_codon=10, limit=100, norm=False)

Generates a line plot of inverse-toeprint (ITP) counts per length.

This method uses the output of itp_len to create a line plot showing the counts of inverse-toeprints across lengths for each replicate. Optionally, counts can be normalized (per million reads), and the plotted lengths can be limited.

Parameters:

• ax (matplotlib.axes.Axes, optional) – Pre-existing axes to draw the plot on. A new figure and axes are created if not provided.

• min_codon (int, optional) – The minimum codon position to annotate on the plot. Defaults to 0.

• max_codon (int, optional) – The maximum codon position to annotate on the plot. Defaults to 10.

• limit (int, optional) – The maximum length to include in the plot. Defaults to 100.

• norm (bool, optional) – Whether to normalize counts to reads per million. Defaults to False.

Returns:

The axes object containing the plotted lineplot.

Return type:

matplotlib.axes.Axes

Notes

• The x-axis represents the distance from the 3’ end of the inverse-toeprint in nucleotides.

• The y-axis shows the counts of inverse-toeprints, either absolute or normalized per million reads.

• Each replicate is plotted independently and distinguished by the hue attribute in the plot.

Examples

>>> sample.itp_len_plot()