Are you sure if chi-squared is the correct test? I am not sure if you can do a chi-sq in EdgeR. If the goal is to account for the changes in gene expression across different levels, why not use EdgeR to do a differential expression analysis?
Are you sure if chi-squared is the correct test? I am not sure if you can do a chi-sq in EdgeR. If the goal is to account for the changes in gene expression across different levels, why not use EdgeR to do a differential expression analysis?