CSC-315 Course Notes

• Module 1: Course Introduction
• R Script: R Basics
• R Script: Dataframes
• Module 2: Graphical and Numerical Summaries
  • R Script: ggplot
  • R Script: Graphical Summaries
  • R Script: Numerical Summaries
  • R Script: Percentiles
  • Alcohol Figure
• Module 3: Association: Contingency, Correlation, and Regression
  • R Script: Associations
  • R Script: Correlation and Regression
  • Extrapolation Examples
• Advanced R Script
• Module 4: Probability
  • R Script: Probability
  • Birthday R script
  • R Script: Normal Distribution
  • R Script: Practice / Review
  • R Script: Sampling Distributions
• Module 5: Hypothesis Testing
  • R Script: Hypothesis Testing
  • Hypothesis Testing Explanation
  • R Script: Dogs Example
  • R Script: Hypothesis Test for Two Sample Proportions
  • Background: Two-Sample Prop Test
  • R Script: T Distribution and T-Test
  • Hypothesis Overview
  • Formula Sheet
  • R Script: Two-sample t-test
• Module 6: Gene Expression
• Module 7: RNA-seq
  • Read Count Example
  • Common Normalization Methods
  • RPKM/FPKM and TPM Formulas
  • R Script: Normalization (old school)
  • R Script: Xena
• Module 7: TMM and Limma
  • R Script: Contrasts

  • R Script: TMM and Limma |

    R Script: FDR

• Module 9: Why TMM and Limma
• Module 10: Functional Annotation
  • R Script: DAVID
• Module 11: Bioinformatics Wrap-Up
  • Movies R script