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  1. Assignment:
  2. Read variancePartition paper
  3. Apply it to ImmVar dataset and describe what you learned about biology of gene expression
  4. How would you apply this framework to a biological question you are interested in?
  5.  
  6. # variancePartition
  7. https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1323-z
  8.  
  9. # Data from ImmVar (below) used in Figure 4
  10. # Original data is described here:
  11. doi:10.1126/science.1249547
  12. doi:10.1016/j.smim.2015.03.003
  13.  
  14. Here are the data
  15. # data are here
  16. https://hoffmg01.u.hpc.mssm.edu/ImmVar/
  17. user: rnaseq
  18. password: immvar
  19.  
  20. This is just formatted data we downloaded from GEO. Everything was open and public to begin with.
  21. # read data
  22. info = readRDS("info.RDS")
  23. ppData = readRDS("exprObj.RDS")
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