kauralasoo/MTAT.03.239_Bioinformatics

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

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