R workshop:

  • Making figures in R, 2019 - Beginner.
       Presentation
       Worksheet
       Answer sheet

  • Custom challenges:

  • Math and string replacements - Beginner
  • Looping through multiple gff files - Beginner
  • If statements - Beginner

  • Coding:

  • UNIX Tutorial for Beginners
  • Command line challenge
  • Cyberciti's command line challenges
  • An introduction to R
  • Unix and perl oneliners for Bioinformatics
  • Bash loops

  • Statistics:

  • Biologist's guide to statistical thinking and analysis
  • Enrichment analysis
  • Multiple linear regression analysis in R
  • Kruskal-Wallis Test and associated post-hoc tests

  • Phylogenetics:

  • ALTER (ALingment Transformation EnviRonment)
  • CIPRES Science Gateway
  • Estimating diversification rates

  • Genomics:

  • The basics of SAMTools
  • Using CNVnator
  • Stepwise: R package for detecting recombination

  • Figure making:

  • Top 50 ggplot2 Visualizations
  • Visualize correlations
  • PCA/clustering visualization

  • Using ACCRE:

  • Lmod - loading modules
  • Example job array
  • Using Python on ACCRE