Entering edit mode
8 days ago
Sara ▴ 220
RNAseq data from patients from 2 time points (before and after treatment) and want to do gene expression analysis comparing 2 time points.
if I want to use
DESeq2, how should I make my
metadata.csv file which will be used for differential gene expression analysis.
normally I make the
metadata.csv file like this:
SampleID Condition patent1-1 T1 patent1-2 T2 patent2-1 T1 patent2-2 T2 patent3-1 T1 patent3-2 T2 patent4-1 T1 patent4-2 T2
and at the end I will get fold change and p-values. how I should make this file for my data to compare 2 time points? shall I do it per individual or include all patients in the same
You need to create a column patient, and then create a design
~ Patient + Condition