:mod:`statistics` --- Mathematical statistics functions ======================================================= .. module:: statistics :synopsis: mathematical statistics functions .. moduleauthor:: Steven D'Aprano .. sectionauthor:: Steven D'Aprano .. versionadded:: 3.4 **Source code:** :source:`Lib/statistics.py` .. testsetup:: * from statistics import * __name__ = '' -------------- This module provides functions for calculating mathematical statistics of numeric (:class:`Real`-valued) data. .. note:: Unless explicitly noted otherwise, these functions support :class:`int`, :class:`float`, :class:`decimal.Decimal` and :class:`fractions.Fraction`. Behaviour with other types (whether in the numeric tower or not) is currently unsupported. Mixed types are also undefined and implementation-dependent. If your input data consists of mixed types, you may be able to use :func:`map` to ensure a consistent result, e.g. ``map(float, input_data)``. Averages and measures of central location ----------------------------------------- These functions calculate an average or typical value from a population or sample. ======================= =============================================================== :func:`mean` Arithmetic mean ("average") of data. :func:`fmean` Fast, floating point arithmetic mean. :func:`geometric_mean` Geometric mean of data. :func:`harmonic_mean` Harmonic mean of data. :func:`median` Median (middle value) of data. :func:`median_low` Low median of data. :func:`median_high` High median of data. :func:`median_grouped` Median, or 50th percentile, of grouped data. :func:`mode` Single mode (most common value) of discrete or nominal data. :func:`multimode` List of modes (most common values) of discrete or nomimal data. :func:`quantiles` Divide data into intervals with equal probability. ======================= =============================================================== Measures of spread ------------------ These functions calculate a measure of how much the population or sample tends to deviate from the typical or average values. ======================= ============================================= :func:`pstdev` Population standard deviation of data. :func:`pvariance` Population variance of data. :func:`stdev` Sample standard deviation of data. :func:`variance` Sample variance of data. ======================= ============================================= Function details ---------------- Note: The functions do not require the data given to them to be sorted. However, for reading convenience, most of the examples show sorted sequences. .. function:: mean(data) Return the sample arithmetic mean of *data* which can be a sequence or iterator. The arithmetic mean is the sum of the data divided by the number of data points. It is commonly called "the average", although it is only one of many different mathematical averages. It is a measure of the central location of the data. If *data* is empty, :exc:`StatisticsError` will be raised. Some examples of use: .. doctest:: >>> mean([1, 2, 3, 4, 4]) 2.8 >>> mean([-1.0, 2.5, 3.25, 5.75]) 2.625 >>> from fractions import Fraction as F >>> mean([F(3, 7), F(1, 21), F(5, 3), F(1, 3)]) Fraction(13, 21) >>> from decimal import Decimal as D >>> mean([D("0.5"), D("0.75"), D("0.625"), D("0.375")]) Decimal('0.5625') .. note:: The mean is strongly affected by outliers and is not a robust estimator for central location: the mean is not necessarily a typical example of the data points. For more robust, although less efficient, measures of central location, see :func:`median` and :func:`mode`. (In this case, "efficient" refers to statistical efficiency rather than computational efficiency.) The sample mean gives an unbiased estimate of the true population mean, which means that, taken on average over all the possible samples, ``mean(sample)`` converges on the true mean of the entire population. If *data* represents the entire population rather than a sample, then ``mean(data)`` is equivalent to calculating the true population mean μ. .. function:: fmean(data) Convert *data* to floats and compute the arithmetic mean. This runs faster than the :func:`mean` function and it always returns a :class:`float`. The result is highly accurate but not as perfect as :func:`mean`. If the input dataset is empty, raises a :exc:`StatisticsError`. .. doctest:: >>> fmean([3.5, 4.0, 5.25]) 4.25 .. versionadded:: 3.8 .. function:: geometric_mean(data) Convert *data* to floats and compute the geometric mean. Raises a :exc:`StatisticsError` if the input dataset is empty, if it contains a zero, or if it contains a negative value. No special efforts are made to achieve exact results. (However, this may change in the future.) .. doctest:: >>> round(geometric_mean([54, 24, 36]), 9) 36.0 .. versionadded:: 3.8 .. function:: harmonic_mean(data) Return the harmonic mean of *data*, a sequence or iterator of real-valued numbers. The harmonic mean, sometimes called the subcontrary mean, is the reciprocal of the arithmetic :func:`mean` of the reciprocals of the data. For example, the harmonic mean of three values *a*, *b* and *c* will be equivalent to ``3/(1/a + 1/b + 1/c)``. The harmonic mean is a type of average, a measure of the central location of the data. It is often appropriate when averaging quantities which are rates or ratios, for example speeds. For example: Suppose an investor purchases an equal value of shares in each of three companies, with P/E (price/earning) ratios of 2.5, 3 and 10. What is the average P/E ratio for the investor's portfolio? .. doctest:: >>> harmonic_mean([2.5, 3, 10]) # For an equal investment portfolio. 3.6 Using the arithmetic mean would give an average of about 5.167, which is too high. :exc:`StatisticsError` is raised if *data* is empty, or any element is less than zero. .. versionadded:: 3.6 .. function:: median(data) Return the median (middle value) of numeric data, using the common "mean of middle two" method. If *data* is empty, :exc:`StatisticsError` is raised. *data* can be a sequence or iterator. The median is a robust measure of central location, and is less affected by the presence of outliers in your data. When the number of data points is odd, the middle data point is returned: .. doctest:: >>> median([1, 3, 5]) 3 When the number of data points is even, the median is interpolated by taking the average of the two middle values: .. doctest:: >>> median([1, 3, 5, 7]) 4.0 This is suited for when your data is discrete, and you don't mind that the median may not be an actual data point. If your data is ordinal (supports order operations) but not numeric (doesn't support addition), you should use :func:`median_low` or :func:`median_high` instead. .. seealso:: :func:`median_low`, :func:`median_high`, :func:`median_grouped` .. function:: median_low(data) Return the low median of numeric data. If *data* is empty, :exc:`StatisticsError` is raised. *data* can be a sequence or iterator. The low median is always a member of the data set. When the number of data points is odd, the middle value is returned. When it is even, the smaller of the two middle values is returned. .. doctest:: >>> median_low([1, 3, 5]) 3 >>> median_low([1, 3, 5, 7]) 3 Use the low median when your data are discrete and you prefer the median to be an actual data point rather than interpolated. .. function:: median_high(data) Return the high median of data. If *data* is empty, :exc:`StatisticsError` is raised. *data* can be a sequence or iterator. The high median is always a member of the data set. When the number of data points is odd, the middle value is returned. When it is even, the larger of the two middle values is returned. .. doctest:: >>> median_high([1, 3, 5]) 3 >>> median_high([1, 3, 5, 7]) 5 Use the high median when your data are discrete and you prefer the median to be an actual data point rather than interpolated. .. function:: median_grouped(data, interval=1) Return the median of grouped continuous data, calculated as the 50th percentile, using interpolation. If *data* is empty, :exc:`StatisticsError` is raised. *data* can be a sequence or iterator. .. doctest:: >>> median_grouped([52, 52, 53, 54]) 52.5 In the following example, the data are rounded, so that each value represents the midpoint of data classes, e.g. 1 is the midpoint of the class 0.5--1.5, 2 is the midpoint of 1.5--2.5, 3 is the midpoint of 2.5--3.5, etc. With the data given, the middle value falls somewhere in the class 3.5--4.5, and interpolation is used to estimate it: .. doctest:: >>> median_grouped([1, 2, 2, 3, 4, 4, 4, 4, 4, 5]) 3.7 Optional argument *interval* represents the class interval, and defaults to 1. Changing the class interval naturally will change the interpolation: .. doctest:: >>> median_grouped([1, 3, 3, 5, 7], interval=1) 3.25 >>> median_grouped([1, 3, 3, 5, 7], interval=2) 3.5 This function does not check whether the data points are at least *interval* apart. .. impl-detail:: Under some circumstances, :func:`median_grouped` may coerce data points to floats. This behaviour is likely to change in the future. .. seealso:: * "Statistics for the Behavioral Sciences", Frederick J Gravetter and Larry B Wallnau (8th Edition). * The `SSMEDIAN `_ function in the Gnome Gnumeric spreadsheet, including `this discussion `_. .. function:: mode(data) Return the single most common data point from discrete or nominal *data*. The mode (when it exists) is the most typical value and serves as a measure of central location. If there are multiple modes, returns the first one encountered in the *data*. If *data* is empty, :exc:`StatisticsError` is raised. ``mode`` assumes discrete data, and returns a single value. This is the standard treatment of the mode as commonly taught in schools: .. doctest:: >>> mode([1, 1, 2, 3, 3, 3, 3, 4]) 3 The mode is unique in that it is the only statistic which also applies to nominal (non-numeric) data: .. doctest:: >>> mode(["red", "blue", "blue", "red", "green", "red", "red"]) 'red' .. versionchanged:: 3.8 Now handles multimodal datasets by returning the first mode encountered. Formerly, it raised :exc:`StatisticsError` when more than one mode was found. .. function:: multimode(data) Return a list of the most frequently occurring values in the order they were first encountered in the *data*. Will return more than one result if there are multiple modes or an empty list if the *data* is empty: .. doctest:: >>> multimode('aabbbbccddddeeffffgg') ['b', 'd', 'f'] >>> multimode('') [] .. versionadded:: 3.8 .. function:: pstdev(data, mu=None) Return the population standard deviation (the square root of the population variance). See :func:`pvariance` for arguments and other details. .. doctest:: >>> pstdev([1.5, 2.5, 2.5, 2.75, 3.25, 4.75]) 0.986893273527251 .. function:: pvariance(data, mu=None) Return the population variance of *data*, a non-empty iterable of real-valued numbers. Variance, or second moment about the mean, is a measure of the variability (spread or dispersion) of data. A large variance indicates that the data is spread out; a small variance indicates it is clustered closely around the mean. If the optional second argument *mu* is given, it should be the mean of *data*. If it is missing or ``None`` (the default), the mean is automatically calculated. Use this function to calculate the variance from the entire population. To estimate the variance from a sample, the :func:`variance` function is usually a better choice. Raises :exc:`StatisticsError` if *data* is empty. Examples: .. doctest:: >>> data = [0.0, 0.25, 0.25, 1.25, 1.5, 1.75, 2.75, 3.25] >>> pvariance(data) 1.25 If you have already calculated the mean of your data, you can pass it as the optional second argument *mu* to avoid recalculation: .. doctest:: >>> mu = mean(data) >>> pvariance(data, mu) 1.25 This function does not attempt to verify that you have passed the actual mean as *mu*. Using arbitrary values for *mu* may lead to invalid or impossible results. Decimals and Fractions are supported: .. doctest:: >>> from decimal import Decimal as D >>> pvariance([D("27.5"), D("30.25"), D("30.25"), D("34.5"), D("41.75")]) Decimal('24.815') >>> from fractions import Fraction as F >>> pvariance([F(1, 4), F(5, 4), F(1, 2)]) Fraction(13, 72) .. note:: When called with the entire population, this gives the population variance σ². When called on a sample instead, this is the biased sample variance s², also known as variance with N degrees of freedom. If you somehow know the true population mean μ, you may use this function to calculate the variance of a sample, giving the known population mean as the second argument. Provided the data points are representative (e.g. independent and identically distributed), the result will be an unbiased estimate of the population variance. .. function:: stdev(data, xbar=None) Return the sample standard deviation (the square root of the sample variance). See :func:`variance` for arguments and other details. .. doctest:: >>> stdev([1.5, 2.5, 2.5, 2.75, 3.25, 4.75]) 1.0810874155219827 .. function:: variance(data, xbar=None) Return the sample variance of *data*, an iterable of at least two real-valued numbers. Variance, or second moment about the mean, is a measure of the variability (spread or dispersion) of data. A large variance indicates that the data is spread out; a small variance indicates it is clustered closely around the mean. If the optional second argument *xbar* is given, it should be the mean of *data*. If it is missing or ``None`` (the default), the mean is automatically calculated. Use this function when your data is a sample from a population. To calculate the variance from the entire population, see :func:`pvariance`. Raises :exc:`StatisticsError` if *data* has fewer than two values. Examples: .. doctest:: >>> data = [2.75, 1.75, 1.25, 0.25, 0.5, 1.25, 3.5] >>> variance(data) 1.3720238095238095 If you have already calculated the mean of your data, you can pass it as the optional second argument *xbar* to avoid recalculation: .. doctest:: >>> m = mean(data) >>> variance(data, m) 1.3720238095238095 This function does not attempt to verify that you have passed the actual mean as *xbar*. Using arbitrary values for *xbar* can lead to invalid or impossible results. Decimal and Fraction values are supported: .. doctest:: >>> from decimal import Decimal as D >>> variance([D("27.5"), D("30.25"), D("30.25"), D("34.5"), D("41.75")]) Decimal('31.01875') >>> from fractions import Fraction as F >>> variance([F(1, 6), F(1, 2), F(5, 3)]) Fraction(67, 108) .. note:: This is the sample variance s² with Bessel's correction, also known as variance with N-1 degrees of freedom. Provided that the data points are representative (e.g. independent and identically distributed), the result should be an unbiased estimate of the true population variance. If you somehow know the actual population mean μ you should pass it to the :func:`pvariance` function as the *mu* parameter to get the variance of a sample. .. function:: quantiles(dist, *, n=4, method='exclusive') Divide *dist* into *n* continuous intervals with equal probability. Returns a list of ``n - 1`` cut points separating the intervals. Set *n* to 4 for quartiles (the default). Set *n* to 10 for deciles. Set *n* to 100 for percentiles which gives the 99 cuts points that separate *dist* in to 100 equal sized groups. Raises :exc:`StatisticsError` if *n* is not least 1. The *dist* can be any iterable containing sample data or it can be an instance of a class that defines an :meth:`~inv_cdf` method. For meaningful results, the number of data points in *dist* should be larger than *n*. Raises :exc:`StatisticsError` if there are not at least two data points. For sample data, the cut points are linearly interpolated from the two nearest data points. For example, if a cut point falls one-third of the distance between two sample values, ``100`` and ``112``, the cut-point will evaluate to ``104``. The *method* for computing quantiles can be varied depending on whether the data in *dist* includes or excludes the lowest and highest possible values from the population. The default *method* is "exclusive" and is used for data sampled from a population that can have more extreme values than found in the samples. The portion of the population falling below the *i-th* of *m* data points is computed as ``i / (m + 1)``. Setting the *method* to "inclusive" is used for describing population data or for samples that include the extreme points. The minimum value in *dist* is treated as the 0th percentile and the maximum value is treated as the 100th percentile. The portion of the population falling below the *i-th* of *m* data points is computed as ``(i - 1) / (m - 1)``. If *dist* is an instance of a class that defines an :meth:`~inv_cdf` method, setting *method* has no effect. .. doctest:: # Decile cut points for empirically sampled data >>> data = [105, 129, 87, 86, 111, 111, 89, 81, 108, 92, 110, ... 100, 75, 105, 103, 109, 76, 119, 99, 91, 103, 129, ... 106, 101, 84, 111, 74, 87, 86, 103, 103, 106, 86, ... 111, 75, 87, 102, 121, 111, 88, 89, 101, 106, 95, ... 103, 107, 101, 81, 109, 104] >>> [round(q, 1) for q in quantiles(data, n=10)] [81.0, 86.2, 89.0, 99.4, 102.5, 103.6, 106.0, 109.8, 111.0] >>> # Quartile cut points for the standard normal distibution >>> Z = NormalDist() >>> [round(q, 4) for q in quantiles(Z, n=4)] [-0.6745, 0.0, 0.6745] .. versionadded:: 3.8 Exceptions ---------- A single exception is defined: .. exception:: StatisticsError Subclass of :exc:`ValueError` for statistics-related exceptions. :class:`NormalDist` objects --------------------------- :class:`NormalDist` is a tool for creating and manipulating normal distributions of a `random variable `_. It is a composite class that treats the mean and standard deviation of data measurements as a single entity. Normal distributions arise from the `Central Limit Theorem `_ and have a wide range of applications in statistics. .. class:: NormalDist(mu=0.0, sigma=1.0) Returns a new *NormalDist* object where *mu* represents the `arithmetic mean `_ and *sigma* represents the `standard deviation `_. If *sigma* is negative, raises :exc:`StatisticsError`. .. attribute:: mean A read-only property for the `arithmetic mean `_ of a normal distribution. .. attribute:: stdev A read-only property for the `standard deviation `_ of a normal distribution. .. attribute:: variance A read-only property for the `variance `_ of a normal distribution. Equal to the square of the standard deviation. .. classmethod:: NormalDist.from_samples(data) Makes a normal distribution instance computed from sample data. The *data* can be any :term:`iterable` and should consist of values that can be converted to type :class:`float`. If *data* does not contain at least two elements, raises :exc:`StatisticsError` because it takes at least one point to estimate a central value and at least two points to estimate dispersion. .. method:: NormalDist.samples(n, *, seed=None) Generates *n* random samples for a given mean and standard deviation. Returns a :class:`list` of :class:`float` values. If *seed* is given, creates a new instance of the underlying random number generator. This is useful for creating reproducible results, even in a multi-threading context. .. method:: NormalDist.pdf(x) Using a `probability density function (pdf) `_, compute the relative likelihood that a random variable *X* will be near the given value *x*. Mathematically, it is the ratio ``P(x <= X < x+dx) / dx``. The relative likelihood is computed as the probability of a sample occurring in a narrow range divided by the width of the range (hence the word "density"). Since the likelihood is relative to other points, its value can be greater than `1.0`. .. method:: NormalDist.cdf(x) Using a `cumulative distribution function (cdf) `_, compute the probability that a random variable *X* will be less than or equal to *x*. Mathematically, it is written ``P(X <= x)``. .. method:: NormalDist.inv_cdf(p) Compute the inverse cumulative distribution function, also known as the `quantile function `_ or the `percent-point `_ function. Mathematically, it is written ``x : P(X <= x) = p``. Finds the value *x* of the random variable *X* such that the probability of the variable being less than or equal to that value equals the given probability *p*. .. method:: NormalDist.overlap(other) Compute the `overlapping coefficient (OVL) `_ between two normal distributions, giving a measure of agreement. Returns a value between 0.0 and 1.0 giving `the overlapping area for the two probability density functions `_. Instances of :class:`NormalDist` support addition, subtraction, multiplication and division by a constant. These operations are used for translation and scaling. For example: .. doctest:: >>> temperature_february = NormalDist(5, 2.5) # Celsius >>> temperature_february * (9/5) + 32 # Fahrenheit NormalDist(mu=41.0, sigma=4.5) Dividing a constant by an instance of :class:`NormalDist` is not supported because the result wouldn't be normally distributed. Since normal distributions arise from additive effects of independent variables, it is possible to `add and subtract two independent normally distributed random variables `_ represented as instances of :class:`NormalDist`. For example: .. doctest:: >>> birth_weights = NormalDist.from_samples([2.5, 3.1, 2.1, 2.4, 2.7, 3.5]) >>> drug_effects = NormalDist(0.4, 0.15) >>> combined = birth_weights + drug_effects >>> round(combined.mean, 1) 3.1 >>> round(combined.stdev, 1) 0.5 .. versionadded:: 3.8 :class:`NormalDist` Examples and Recipes ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ :class:`NormalDist` readily solves classic probability problems. For example, given `historical data for SAT exams `_ showing that scores are normally distributed with a mean of 1060 and a standard deviation of 192, determine the percentage of students with test scores between 1100 and 1200, after rounding to the nearest whole number: .. doctest:: >>> sat = NormalDist(1060, 195) >>> fraction = sat.cdf(1200 + 0.5) - sat.cdf(1100 - 0.5) >>> round(fraction * 100.0, 1) 18.4 Find the `quartiles `_ and `deciles `_ for the SAT scores: .. doctest:: >>> [round(sat.inv_cdf(p)) for p in (0.25, 0.50, 0.75)] [928, 1060, 1192] >>> [round(sat.inv_cdf(p / 10)) for p in range(1, 10)] [810, 896, 958, 1011, 1060, 1109, 1162, 1224, 1310] What percentage of men and women will have the same height in `two normally distributed populations with known means and standard deviations `_? >>> men = NormalDist(70, 4) >>> women = NormalDist(65, 3.5) >>> ovl = men.overlap(women) >>> round(ovl * 100.0, 1) 50.3 To estimate the distribution for a model than isn't easy to solve analytically, :class:`NormalDist` can generate input samples for a `Monte Carlo simulation `_: .. doctest:: >>> def model(x, y, z): ... return (3*x + 7*x*y - 5*y) / (11 * z) ... >>> n = 100_000 >>> X = NormalDist(10, 2.5).samples(n) >>> Y = NormalDist(15, 1.75).samples(n) >>> Z = NormalDist(5, 1.25).samples(n) >>> NormalDist.from_samples(map(model, X, Y, Z)) # doctest: +SKIP NormalDist(mu=19.640137307085507, sigma=47.03273142191088) Normal distributions commonly arise in machine learning problems. Wikipedia has a `nice example of a Naive Bayesian Classifier `_. The challenge is to predict a person's gender from measurements of normally distributed features including height, weight, and foot size. We're given a training dataset with measurements for eight people. The measurements are assumed to be normally distributed, so we summarize the data with :class:`NormalDist`: .. doctest:: >>> height_male = NormalDist.from_samples([6, 5.92, 5.58, 5.92]) >>> height_female = NormalDist.from_samples([5, 5.5, 5.42, 5.75]) >>> weight_male = NormalDist.from_samples([180, 190, 170, 165]) >>> weight_female = NormalDist.from_samples([100, 150, 130, 150]) >>> foot_size_male = NormalDist.from_samples([12, 11, 12, 10]) >>> foot_size_female = NormalDist.from_samples([6, 8, 7, 9]) Next, we encounter a new person whose feature measurements are known but whose gender is unknown: .. doctest:: >>> ht = 6.0 # height >>> wt = 130 # weight >>> fs = 8 # foot size Starting with a 50% `prior probability `_ of being male or female, we compute the posterior as the prior times the product of likelihoods for the feature measurements given the gender: .. doctest:: >>> prior_male = 0.5 >>> prior_female = 0.5 >>> posterior_male = (prior_male * height_male.pdf(ht) * ... weight_male.pdf(wt) * foot_size_male.pdf(fs)) >>> posterior_female = (prior_female * height_female.pdf(ht) * ... weight_female.pdf(wt) * foot_size_female.pdf(fs)) The final prediction goes to the largest posterior. This is known as the `maximum a posteriori `_ or MAP: .. doctest:: >>> 'male' if posterior_male > posterior_female else 'female' 'female' .. # This modelines must appear within the last ten lines of the file. kate: indent-width 3; remove-trailing-space on; replace-tabs on; encoding utf-8;