TeachingMaterials

This repository is an aggregator for various R, git/github teaching material. Most of the courses are taught at the Autonomous University of Barcelona (UAB) and University of Vic (UVic), and some have been adapted and exported outside.

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License

Unless otherwise stated, all material is licensed under a Creative Commons Attribution-ShareAlike 3.0 License. This means you are free to copy, distribute and transmit the work, adapt it to your needs as long as you cite its origin and, if you do redistribute it, do so under the same license.

List of Materials

Course: Creating Shiny Apps for biostatisticians and bioinformaticians

• Description: A 2-day course given at ISGlobal
• Organizer: Juan R Gonzalez
• Lecturer: Isaac Subirana
• Content: Part I: Introduction and first examples. Part II: Form elements: panels, buttons, drop-down lists, ... Part III: Shiny functioning. Part IV: Improving apps functionality and aspect. Part V: Advanced aspects.
• Original Repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/Shiny

Course: Biotools in biostatistics and bioinformatics

• Description: A 3-day course given at ISGlobal
• Author: Juan R Gonzalez, Cales Hernandez-Ferrer and Isaac Subirana
• Content: Part I: Advanced R programming; Part II: Reproducible research (Knitr and Markdown); Part III: Version control (Github); Part IV: Shinny
• Original Repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/Biotools

Longitudinal data analysis (in Spanish)

• Description: Trimester course given at Degree of Statistics (UAB)
• Author: Juan R Gonzalez
• Content: Part I: Analysis of temporal trends; Part II: Survival Analysis with recurrent event data; Part III: Non-linear models; Part IV: Longitudinal linear models.
• Original repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/Longitudinal_data_analysis

BioC

• Description: 2-hour lecture introducing Bioconductor
• Author: Juan R Gonzalez
• Content: Part I:Introduction to Bioconductor; Part II: Handling omic data (SnpMatrix, ExpressionSet, GenomicRanges, SummarizedExperiment and MultiDataSet)
• Original repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/BioC

MultiDataSet

• Description: 1-hour lecture introducing MultiDataSets (MDS) objects
• Author: Carlos Ruiz and Juan R Gonzalez
• Content: Design and structure of MDS objects, creating MDS, subsetting MDS, omic data integration using MDS, profiling
• Original repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/MultiDataSets

Multiomic data analysis

• Description: 2-hour lecture introducing multiomic data analysis
• Author: Juan R Gonzalez
• Content: Genomic variation analysis, domain knowledge-guided approach, dimensionality reduction (PCA, MCIA, multiCCA)
• Original repository: https://github.com/isglobal-brge/TeachingMaterials/tree/master/Multiomic_data_analysis

Genetic association studies

• Description: Lectures given at Master in Bioinformatics (UAB) and Master of Omic data analysis (UVic)
• Author: Juan R Gonzalez
• Content: Single association analysis, haplotype analysis, GWAS, post-GWAS
• Original repository: