sbmlsim.plot.plotting_matplotlib

Module Contents

Classes

MatplotlibFigureSerializer

Serializing figure to matplotlib figure.

Functions

interp(x, xp, fp)

Interpolation for speedup of plots

add_line(ax, xres, xid, yid, xunit, yunit, yres = None, xf=1.0, yf=1.0, all_lines=False, label='__nolabel__', **kwargs)

Adding information from a simulation result to a matplotlib figure.

add_data(ax, data, xid, yid, yid_sd=None, yid_se=None, count=None, xunit=None, yunit=None, xf=1.0, yf=1.0, label='__nolabel__', **kwargs)

Add experimental data to a matplotlib axes.

Attributes

logger

kwargs_data

kwargs_sim

sbmlsim.plot.plotting_matplotlib.logger[source]
sbmlsim.plot.plotting_matplotlib.kwargs_data[source]
sbmlsim.plot.plotting_matplotlib.kwargs_sim[source]
sbmlsim.plot.plotting_matplotlib.interp(x, xp, fp)[source]

Interpolation for speedup of plots

Parameters

  • x –

  • xp –

  • fp –

Returns

class sbmlsim.plot.plotting_matplotlib.MatplotlibFigureSerializer[source]

Bases: object

Serializing figure to matplotlib figure.

static to_figure(figure)[source]

Convert sbmlsim.Figure to matplotlib figure.

Parameters

figure (sbmlsim.plot.Figure) –

Return type

matplotlib.pyplot.Figure

sbmlsim.plot.plotting_matplotlib.add_line(ax, xres, xid, yid, xunit, yunit, yres=None, xf=1.0, yf=1.0, all_lines=False, label='__nolabel__', **kwargs)[source]

Adding information from a simulation result to a matplotlib figure.

This is deprecated the sbmlsim.plot.plotting Figure, Plot, Curves, … should be used.

Parameters

  • ax (matplotlib.pyplot.Axes) – axis to plot to

  • xres (sbmlsim.result.XResult) – Result data structure

  • xid (str) – id for xdata

  • yid (str) – id for ydata

  • all_lines – plot all individual lines

  • xunit – target unit for x

  • yunit – target unit for y

  • color –

  • yres (sbmlsim.result.XResult) –

Returns

sbmlsim.plot.plotting_matplotlib.add_data(ax, data, xid, yid, yid_sd=None, yid_se=None, count=None, xunit=None, yunit=None, xf=1.0, yf=1.0, label='__nolabel__', **kwargs)[source]

Add experimental data to a matplotlib axes.

This is deprecated the plotting Figure, Plot, Curves, should be used instead.

Parameters

  • ax (matplotlib.pyplot.Axes) –

  • data (sbmlsim.data.DataSet) –

  • xid (str) –

  • yid (str) –

  • xunit –

  • yunit –

  • label –

  • kwargs –

Returns