ASCI 896 Statistical Genomics

Gota Morota
1/21/16

One locus to the infinitesimal model - 2

Challenges in irreproducible research

Scientific journals

Many journals now require authors to make their data publicly available prior to publication.

and more.

Some journals also encourage authors to share their software or code used for analysis

Reproducible research tools

Examples

  • README file
  • GNU make
  • Git/GitHub
  • Python + Jupyter Notebook
  • R markdown + knitr

CRAN Task View: Reproducible Research

Homework assignments

Grading policies

  • reproducible data analysis
  • documentation of code
  • interpretation of results

I encourage you to discuss with people in the class but do not share code

Introduction to R