Probability density function plot in python

Question

I am reading from a large file that has data. I want to plot the PDF of the data but in Python.

This is the part of my code related to the question (I know it isn't helpful but I can't upload the files as they're huge).

ax_1 = pl.subplot(2,2,3)
y = norm.pdf(bins, Nat_Coronary_Mean, Nat_Coronary_std)
l = pl.plot(bins, y, 'r-', linewidth=2.5)
x_ticks_1 = np.arange(-13.*Nat_Coronary_std, 13.*Nat_Coronary_std, Nat_Coronary_std)                                  
x_labels_1 = [r"${} \sigma$".format(i) for i in range(-13,10)]                       
ax_1.set_xticks(x_ticks_1)                                                           
ax_1.set_xticklabels(x_labels_1)  
pl.title('Nat Cor Tau PDF: Mean '+str(Nat_Coronary_Mean)+' and sigma '+str(Nat_Coronary_std)+'',fontsize=11)

Does norm.pdf mean that it is transforming the distribution into a gaussian one? Or is it normalizing the data? (I understand that the area under the PDF curve is equal to 1) I am just confused about why there is no "pdf" option alone and what the "norm" is for.

Answer 1

I want to check the overall histograms and pdf's before I make conclusions.

You can plot histograms using pyplot:

import matplotlib.pyplot as plt
plt.hist(data, bins=100)
plt.show()

Answer 2

After some back and forth, I will offer this as an answer to the original question. This is a list of the PDFs available in the latest scipy.stats. You will be able to generate a theoretical PDF with each of these.

continuous distributions

• alpha An alpha continuous random variable.
• anglit An anglit continuous random variable.
• arcsine An arcsine continuous random variable.
• beta A beta continuous random variable.
• betaprime A beta prime continuous random variable.
• bradford A Bradford continuous random variable.
• burr A Burr continuous random variable.
• cauchy A Cauchy continuous random variable.
• chi A chi continuous random variable.
• chi2 A chi-squared continuous random variable.
• cosine A cosine continuous random variable.
• dgamma A double gamma continuous random variable.
• dweibull A double Weibull continuous random variable.
• erlang An Erlang continuous random variable.
• expon An exponential continuous random variable.
• exponnorm An exponentially modified Normal continuous random variable.
• exponweib An exponentiated Weibull continuous random variable.
• exponpow An exponential power continuous random variable.
• f An F continuous random variable.
• fatiguelife A fatigue-life (Birnbaum-Saunders) continuous random variable.
• fisk A Fisk continuous random variable.
• foldcauchy A folded Cauchy continuous random variable.
• foldnorm A folded normal continuous random variable.
• frechet_r A Frechet right (or Weibull minimum) continuous random variable.
• frechet_l A Frechet left (or Weibull maximum) continuous random variable.
• genlogistic A generalized logistic continuous random variable.
• gennorm A generalized normal continuous random variable.
• genpareto A generalized Pareto continuous random variable.
• genexpon A generalized exponential continuous random variable.
• genextreme A generalized extreme value continuous random variable.
• gausshyper A Gauss hypergeometric continuous random variable.
• gamma A gamma continuous random variable.
• gengamma A generalized gamma continuous random variable.
• genhalflogistic A generalized half-logistic continuous random variable.
• gilbrat A Gilbrat continuous random variable.
• gompertz A Gompertz (or truncated Gumbel) continuous random variable.
• gumbel_r A right-skewed Gumbel continuous random variable.
• gumbel_l A left-skewed Gumbel continuous random variable.
• halfcauchy A Half-Cauchy continuous random variable.
• halflogistic A half-logistic continuous random variable.
• halfnorm A half-normal continuous random variable.
• halfgennorm The upper half of a generalized normal continuous random variable.
• hypsecant A hyperbolic secant continuous random variable.
• invgamma An inverted gamma continuous random variable.
• invgauss An inverse Gaussian continuous random variable.
• invweibull An inverted Weibull continuous random variable.
• johnsonsb A Johnson SB continuous random variable.
• johnsonsu A Johnson SU continuous random variable.
• ksone General Kolmogorov-Smirnov one-sided test.
• kstwobign Kolmogorov-Smirnov two-sided test for large N.
• laplace A Laplace continuous random variable.
• logistic A logistic (or Sech-squared) continuous random variable.
• loggamma A log gamma continuous random variable.
• loglaplace A log-Laplace continuous random variable.
• lognorm A lognormal continuous random variable.
• lomax A Lomax (Pareto of the second kind) continuous random variable.
• maxwell A Maxwell continuous random variable.
• mielke A Mielke’s Beta-Kappa continuous random variable.
• nakagami A Nakagami continuous random variable.
• ncx2 A non-central chi-squared continuous random variable.
• ncf A non-central F distribution continuous random variable.
• nct A non-central Student’s T continuous random variable.
• norm A normal continuous random variable.
• pareto A Pareto continuous random variable.
• pearson3 A pearson type III continuous random variable.
• powerlaw A power-function continuous random variable.
• powerlognorm A power log-normal continuous random variable.
• powernorm A power normal continuous random variable.
• rdist An R-distributed continuous random variable.
• reciprocal A reciprocal continuous random variable.
• rayleigh A Rayleigh continuous random variable.
• rice A Rice continuous random variable.
• recipinvgauss A reciprocal inverse Gaussian continuous random variable.
• semicircular A semicircular continuous random variable.
• t A Student’s T continuous random variable.
• triang A triangular continuous random variable.
• truncexpon A truncated exponential continuous random variable.
• truncnorm A truncated normal continuous random variable.
• tukeylambda A Tukey-Lamdba continuous random variable.
• uniform A uniform continuous random variable.
• vonmises A Von Mises continuous random variable.
• wald A Wald continuous random variable.
• weibull_min A Frechet right (or Weibull minimum) continuous random variable.
• weibull_max A Frechet left (or Weibull maximum) continuous random variable.
• wrapcauchy A wrapped Cauchy continuous random variable.
• Multivariate distributions
• multivariate_normal A multivariate normal random variable.
• dirichlet A Dirichlet random variable.
• wishart A Wishart random variable.
• invwishart An inverse Wishart random variable.

Discrete distributions

• bernoulli A Bernoulli discrete random variable.
• binom A binomial discrete random variable.
• boltzmann A Boltzmann (Truncated Discrete Exponential) random variable.
• dlaplace A Laplacian discrete random variable.
• geom A geometric discrete random variable.
• hypergeom A hypergeometric discrete random variable.
• logser A Logarithmic (Log-Series, Series) discrete random variable.
• nbinom A negative binomial discrete random variable.
• planck A Planck discrete exponential random variable.
• poisson A Poisson discrete random variable.
• randint A uniform discrete random variable.
• skellam A Skellam discrete random variable.
• zipf A Zipf discrete random variable.