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[density] plot added

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mzwiessele 2015-10-01 20:06:31 +01:00
parent 6b6ca60bb5
commit d8243383b4
3 changed files with 186 additions and 0 deletions
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39
GPy/core/gp.py
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@ -595,6 +595,45 @@ class GP(Model):
data_symbol=data_symbol, predict_kw=predict_kw,
plot_training_data=plot_training_data, samples_y=samples_y, apply_link=apply_link, **kw)
def plot_density(self, levels=20, plot_limits=None, fignum=None, ax=None,
fixed_inputs=[], plot_raw=False, edgecolor='none', facecolor='#3465a4',
predict_kw=None,Y_metadata=None,
apply_link=False, resolution=200, **patch_kw):
"""
Plot the posterior density of the GP.
- In one dimension, the function is plotted with a shaded gradient, visualizing the density of the posterior.
- Only implemented for one dimension, for higher dimensions use `plot`.
:param levels: number of levels to plot in the density plot. This is a number between 1 and 100. 1 corresponds to the normal plot_fit.
:type levels: int
:param plot_limits: The limits of the plot. If 1D [xmin,xmax], if 2D [[xmin,ymin],[xmax,ymax]]. Defaluts to data limits
:type plot_limits: np.array
:param fixed_inputs: a list of tuple [(i,v), (i,v)...], specifying that input index i should be set to value v.
:type fixed_inputs: a list of tuples
:param resolution: the number of intervals to sample the GP on. Defaults to 200 in 1D and 50 (a 50x50 grid) in 2D
:type resolution: int
:param edgecolor: color of line to plot [Tango.colorsHex['darkBlue']]
:type edgecolor: color either as Tango.colorsHex object or character ('r' is red, 'g' is green) as is standard in matplotlib
:param facecolor: color of fill [Tango.colorsHex['lightBlue']]
:type facecolor: color either as Tango.colorsHex object or character ('r' is red, 'g' is green) as is standard in matplotlib
:param Y_metadata: additional data associated with Y which may be needed
:type Y_metadata: dict
: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
:param resolution: resolution of interpolation (how many points to interpolate of the posterior).
:type resolution: int
:param: patch_kw: the keyword arguments for the patchcollection fill.
"""
assert "matplotlib" in sys.modules, "matplotlib package has not been imported."
from ..plotting.matplot_dep import models_plots
return models_plots.plot_density(self, levels, plot_limits, fignum, ax,
fixed_inputs, plot_raw=plot_raw,
Y_metadata=Y_metadata,
predict_kw=predict_kw,
apply_link=apply_link,
edgecolor=edgecolor, facecolor=facecolor,
**patch_kw)
def plot_data(self, which_data_rows='all',
which_data_ycols='all', visible_dims=None,