# Think Statistics with R

"It's easy to lie with statistics. It's hard to tell the truth without it."

— Andrejs Dunkels, Latvian-Swedish mathematician

The main aim of this course is to teach you to **how to approach data analysis problems
with classical statistics**. We focus on the *intuition* behind statistical methodologies
rather than on "how to run a t-test with R" (which we will also learn, by the way).

First we review the foundations (sampling theory, discrete and continuous distributions), then we continue with hypothesis testing. The technology itself is introduced using "Student"'s t-test as an example, with a strong emphasis on errors (false positives, p-value distributions, test power calculations). Finally a short "cookbook of tests" is offered.

**Instructor:** András Aszódi.

## Topics

This course teaches the same statistical concepts as the Basic statistics with Python training but uses the R programming language.

- Sampling theory: obtaining information about a population via sampling. Sample characteristics (location, dispersion, skewness).
- Discrete and continuous probability distributions. Central limit theorem.
- The distribution of the sample mean. Confidence intervals.
- Basic principles of hypothesis testing. "Student"'s t-test.
- Type I and Type II errors. P-value distributions. Power calculations.
- "Cookbook of tests": distribution tests, parametric and non-parametric tests, counting statistics, contingency tables, correlation tests.

## Exercises

Online exercises are available when this course is running. Please select the option "R stats" from the dropdown in the "Request an exercise notebook" form.

## Out of scope

**We cannot go into the specific data analysis problems of your particular project.**

Furthermore, this course will not teach you bioinformatics.
In particular, *no high-throughput sequencing data will be used* because they are impractically large,
and not everyone on campus is working with sequencing.

## Prerequisites

Basic familiarity with R is required. In particular the following skills are necessary:

- Using the R interpreter, either the command-line program or in R Studio
- How to invoke R functions, pass optional/named parameters
- Some familiarity with simple plotting commands

If you have attended our R as a programming language training then you are well equipped to take this course.

## "Bring Your Own Data"

You can bring your own data to this course and run a "Student"'s t-test on it.

### The data set

Please prepare
a comma-separated-values (CSV) file **with UNIX line endings** (`\n`) that
consists of two columns corresponding to the two groups of data. You can do this easily
with Excel.
The first row shall contain the group labels.
The size of the two groups need not be the same.
Save the CSV file to the laptop that you will bring to the course.

### Data confidentiality

The training VM is protected by a firewall and other security measures. Your training account together with all data will be deleted immediately after the course.

## Practical information

**Number of participants:** minimum 5, maximum 10.

**Length:** The course takes two half-days,
from 09:00 to 13:00 with 2 breaks.