MTAT.03.239 Bioinformatics

Teaching materials and tutorials for the bioinformatics course thought at the University of Tartu.

Introductory tutorials

1. Setting up the command-line environment
2. Using a pre-configured docker container
3. Using Snakemake
4. Setting up RStudio for gene expression analysis.
5. RNA-seq tutorial from Galaxy
6. Introduction to R
7. An Introduction to Hierarchical Modeling
8. Plotting partial pooling in mixed-effects models
9. Statistics for biologists
10. Importing genotype data into R with GDSArray
11. The Missing Semester of your CS education - good instructions for working with Linux command line

Topics

1. RNA-seq alignment
2. Exploring gene expression data
3. EM algorithm
4. Variance component analysis

Related courses

• Ben Langmead's Algorithms for DNA Sequencing (excellent video lectures on DNA alignment)
• Aaron Quinlan's Applied Computational Genomics Course
• Mike Love's Introduction to Computational Biology
• Bioinformatics Algorithms
• Manolis Kellis's MIT Computational Biology: Genomes, Networks, Evolution, Health
• Rafael A. Irizarry's Introduction to Data Science