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Classical statistical tests

The standard toolkit from SciPy: compare two groups or many, test normality, test independence in a contingency table, and test correlations - each with an effect size and a plain-English verdict.

What it needs

The intuition

Every test here compares a signal to the noise around it. The t-statistic is literally (difference between groups) ÷ (how much that difference bounces around under repeated sampling). If the ratio is large, the difference is bigger than sampling noise can comfortably explain.

When to use it

When your question is "do these two (or more) groups differ?" rather than "how does X affect Y holding Z constant?". For the second question you want regression.

Where the estimator comes from

Under H_0 the difference in means has expectation zero and estimable variance, so t=(\bar{x}_1-\bar{x}_2)/\mathrm{SE} follows a t distribution with the appropriate degrees of freedom. Welch does not pool the variances, using \mathrm{SE}=\sqrt{s_1^2/n_1+s_2^2/n_2} and adjusting the degrees of freedom by the Satterthwaite formula, which is why it stays valid when the groups have different spreads. ANOVA generalises this: F=\mathrm{MS}_{\text{between}}/\mathrm{MS}_{\text{within}}, the same idea with more than two groups.

The model

t=\frac{\bar{x}_1-\bar{x}_2}{\operatorname{SE}(\bar{x}_1-\bar{x}_2)} \qquad F=\frac{\text{between-group variance}}{\text{within-group variance}}

What it assumes

Statistical properties

How to read the output

A worked reading

Welch's t = 8.4185, p < 0.0001, on a difference of 0.2144 log points between the two groups (means 2.4681 and 2.2538 on 575 and 625 observations). Read it as: one group earns about 21 log points - roughly 24% - more on average, and sampling noise alone would essentially never produce a gap this large. Two cautions belong with that. Welch's version is used rather than Student's because it does not assume the two variances are equal; here they are almost identical (0.4425 against 0.4387) so the two tests would agree, but that is luck rather than something to rely on, and Welch costs nothing when the assumption does hold. And a p-value this small says the difference is not zero, not that it is important - with 1,200 observations a difference of a tenth the size would also have cleared any threshold. The effect size is what makes it interesting, and 0.2144 log points is the number to report and defend.

Symptom → diagnosis → what to do

If you see thisIt meansDo this
Levene rejectsGroup variances differUse Welch's t-test, not Student's
Strong skew or outliersNormality is doubtful in a small sampleUse Mann–Whitney or bootstrap the difference
Significant p but tiny dLarge sample detecting a trivial differenceReport the effect size and say plainly that it is small
ANOVA rejectsSome group differs, but which?Tukey HSD, which corrects for multiple comparisons
χ² with expected counts below 5The χ² approximation is unreliableCombine categories, or use Fisher's exact test

Common mistakes

Where to read this properly

See also

A two-sample t-test is exactly an OLS regression of the outcome on a group dummy. Move to OLS the moment you need to control for anything else.

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