rstoolbox.plot.logo_plot¶

rstoolbox.plot.logo_plot(df, seqID, refseq=True, key_residues=None, line_break=None, hight_prop=4, font_size=35, refplot=False, colors='WEBLOGO')¶

Generates full figure classic LOGO plots.

Parameters:

df (Union[DesignFrame, SequenceFrame]) – Data container. seqID (str) – Identifier of the sequence of interest. refseq (bool) – if True (default), mark the original residues according to the reference sequence. key_residues (Residues of interest) – Residues of interest. line_break (int) – Force a line-change in the plot after n residues are plotted. hight_prop (int) – Hight proportion for each row of the plot. font_size (float) – Expected size of the axis font. refplot (bool) – When True, it will reorder the residues in each position so that the reference residue will be on the bottom and setting a two-color scheme (provide a single color name in colors) that allows to quickly identify the reference type in each position. colors (Union[str, dict]) – Colors to assign; it can be the name of a available color set or a dictionary with a color for each type. Available color schemes are: Weblogo (default), Hydrophobicity, Chemistry, and Charge.

Returns:

Figure and list() of [Axes, Axes] - with primary and secondary axis of each subplot.

See also

logo_plot_in_axis()

Example

In [1]: from rstoolbox.io import parse_rosetta_file
   ...: from rstoolbox.plot import logo_plot
   ...: import matplotlib.pyplot as plt
   ...: df = parse_rosetta_file("../rstoolbox/tests/data/input_2seq.minisilent.gz",
   ...:                         {"sequence": "B"})
   ...: df.add_reference_sequence("B", df.get_sequence("B")[0])
   ...: fig, axes = logo_plot(df, "B", refseq=True, line_break=50)
   ...: plt.tight_layout()
   ...: 

In [2]: plt.show()

In [3]: plt.close()