Created
December 29, 2011 19:53
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A quick and dirty slice sampler.
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from numpy.random import uniform | |
import numpy | |
import random | |
def slice_sampler(px, N = 1, x = None): | |
""" | |
Provides samples from a user-defined distribution. | |
slice_sampler(px, N = 1, x = None) | |
Inputs: | |
px = A discrete probability distribution. | |
N = Number of samples to return, default is 1 | |
x = Optional list/array of observation values to return, where prob(x) = px. | |
Outputs: | |
If x=None (default) or if len(x) != len(px), it will return an array of integers | |
between 0 and len(px)-1. If x is supplied, it will return the | |
samples from x according to the distribution px. | |
""" | |
values = numpy.zeros(N, dtype=numpy.int) | |
samples = numpy.arange(len(px)) | |
px = numpy.array(px) / (1.*sum(px)) | |
u = uniform(0, max(px)) | |
for n in xrange(N): | |
included = px>=u | |
choice = random.sample(range(numpy.sum(included)), 1)[0] | |
values[n] = samples[included][choice] | |
u = uniform(0, px[included][choice]) | |
if x: | |
if len(x) == len(px): | |
x=numpy.array(x) | |
values = x[values] | |
else: | |
print "px and x are different lengths. Returning index locations for px." | |
if N == 1: | |
return values[0] | |
return values |
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I do not understand why you feed the selected value of px back into generating u.