Probabilities and statistics for modelling 1 (STAT1)

General info

Course contents

This course is a quick revision of the basics of probability and statistics. The concepts will be taught in relation to concrete biological examples (genome analysis, complex systems).

The following concepts will be taught :

  • Combinatorial analysis
  • Concepts of probabilities
  • Discrete distributions (Bernouilli, binomial, geometric, hypergeometric, Poisson)
  • Quick review of the basic continuous laws (normal and Student’s distribution)
  • Estimation and sampling
  • Statistical hypothesis tests
  • Corrections for multiple testing

Applications to biology will include:

  • pattern matching
  • alignment of next generation sequencing (NGS) short reads on a reference genome
  • annotation of open reading frames (ORFs) in a genome
  • detection of differentially expressed genes
  • functional enrichment analysis (reported to course STAT2 of second semester 2019)

2019 calendar

Sept 13

  • Combinatorics
  • Concepts of probabilities
  • Practicals: first steps with R

Sept 20

  • Estimation and sampling
  • Practicals: handling data tables with R

Oct

Course support

Book chapters

Ametice gives access to a draft versions of selected chapters of my unpublished book “Statistics for bioinformatics”. This access is restricted to students registered for this course.

Lectures and practicals

Day Time Type Contents Teaching material
13/09 09h - 12h Lecture Combinatorics (EN) [html] [pdf] [Rmd]
Exercises Combinatorics (to translate) [html] [pdf] [Rmd]
Lecture Concepts of probabilities (to translate) [html] [pdf] [Rmd]
Exercises Concepts of probabilities (to translate) [html] [pdf] [Rmd]
Lecture Discrete distributions (partly translated) [html] [pdf] [Rmd]
Exercises Discrete distributions (partly translated) [html] [pdf] [Rmd]
13/09 14h - 17h Practical 1 First steps with R (EN) [html] [pdf] [Rmd]
20/09 09h - 12h Lecture Sampling and estimation (to translate) [html] [pdf] [Rmd]
20/09 14h - 17h Practical 2 Analysis of a genome annotation table (EN) [html] [pdf] [Rmd]
03/10 14h - 17h Practical 2 Solution: Analysis of a genome annotation table (EN) [html] [pdf] [Rmd]
04/10 09h - 12h Lecture Mean comparison tests (EN) [html] [pdf] [Rmd]
10/10 14h-17h Practical 4 Preparation of the personal work (EN) [html] [pdf] [Rmd]

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