Differential Analysis - TealFurnholm/Strain-Level_Metatranscriptome_Analysis GitHub Wiki

!- under construction as of 2-16-21 - need to update the R script to take current file names

For Comparative Sample Analysis:

  • fill in the design.matrix = the sample names and which group they belong (eg. control, disease-only, drug-only, disease+drug)

wget https://github.com/TealFurnholm/Metatranscriptome/blob/master/design.matrix

  • fill in the contrast.matrix = each group and how you want them compared (eg. disease+drug vs drug-only)

wget https://github.com/TealFurnholm/Metatranscriptome/blob/master/contrast.matrix