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Updated sampling and plots to be correct shape, and changed plotting of sampling to be posterior samples p(f*|f), like it used to be, and samples_y to plot samples of p(y*|y)

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Alan Saul 2015-09-10 11:08:28 +01:00
parent 6acf5dcfac
commit ef778f75d4
5 changed files with 41 additions and 29 deletions
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12
GPy/core/gp.py
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@ -535,7 +535,7 @@ class GP(Model):
which_data_ycols='all', fixed_inputs=[],
levels=20, samples=0, fignum=None, ax=None, resolution=None,
plot_raw=False, linecol=None,fillcol=None, Y_metadata=None,
data_symbol='kx', predict_kw=None, plot_training_data=True):
data_symbol='kx', predict_kw=None, plot_training_data=True, samples_y=0, apply_link=False):
"""
Plot the posterior of the GP.
- In one dimension, the function is plotted with a shaded region identifying two standard deviations.
@ -558,7 +558,7 @@ class GP(Model):
:param levels: number of levels to plot in a contour plot.
:param levels: for 2D plotting, the number of contour levels to use is ax is None, create a new figure
:type levels: int
:param samples: the number of a posteriori samples to plot
:param samples: the number of a posteriori samples to plot, p(f*|y)
:type samples: int
:param fignum: figure to plot on.
:type fignum: figure number
@ -574,6 +574,10 @@ class GP(Model):
:type data_symbol: color either as Tango.colorsHex object or character ('r' is red, 'g' is green) alongside marker type, as is standard in matplotlib.
:param plot_training_data: whether or not to plot the training points
:type plot_training_data: boolean
:param samples_y: the number of a posteriori samples to plot, p(y*|y)
:type samples_y: int
:param apply_link: if there is a link function of the likelihood, plot the link(f*) rather than f*, when plotting posterior samples f
:type apply_link: boolean
"""
assert "matplotlib" in sys.modules, "matplotlib package has not been imported."
from ..plotting.matplot_dep import models_plots
@ -587,7 +591,7 @@ class GP(Model):
levels, samples, fignum, ax, resolution,
plot_raw=plot_raw, Y_metadata=Y_metadata,
data_symbol=data_symbol, predict_kw=predict_kw,
plot_training_data=plot_training_data, **kw)
plot_training_data=plot_training_data, samples_y=samples_y, apply_link=apply_link, **kw)
def plot_data(self, which_data_rows='all',
@ -613,7 +617,7 @@ class GP(Model):
:param levels: number of levels to plot in a contour plot.
:param levels: for 2D plotting, the number of contour levels to use is ax is None, create a new figure
:type levels: int
:param samples: the number of a posteriori samples to plot
:param samples: the number of a posteriori samples to plot, p(f*|y)
:type samples: int
:param fignum: figure to plot on.
:type fignum: figure number