Additional reading

/5 - Olga's paper rating on a scale of 1 (worst) to 5 (best)

Introduction to single cell

• 5/5 Kolodziejczyk et al, Mol Cell (2015)
  • Great figures and overview of single cell
• 5/5 Bacher R & Kendziorski C, Genome Biology (2016)
  • Describes different downstream machine learning analyses in detail
  • Fantastic table overview of current algorithms used in single cell analyses
• 4/5 Stegle O et al, Nature Review Genetics (2015)
  • Describes different expression normalization and QC steps in detail

Gene expression units

• 5/5 What the FPKM?: A review of RNA-seq expression units

Data format organization

• 5/5 Wickham H, J Statistical Software (2014)
  • Excellent paper explicitly describing the concept of "tidy data," where each row indicates a single observation. Honestly a game-changing paper in the way that you think about data structure and organization. Well worth the read

Introduction to Machine learning

• 5/5 Introduction to Machine Learning, scikit-learn (2016)
  • Great overview of inputs and usage of Python's fantastic machine learning library, scikit-learn