8.2. How can I identify differential expression between groups affected by more than factor?
The Differential Expression for RNA-Seq tool only allows for selection of one column from the metadata for Test differential expression due to:
For comparing groups of samples affected by several factors an additional column describing these groups should be included in the metadata.
An example of this could be a time series experiment with the factors:
- Treatment (No treatment, Mock Treatment and Treatment)
- Time points (0 hours, 12 hours and 24 hours)
To compare 'Treatment 12 hours' vs 'Mock treatment 12 hours' a column describing both the treatment and the time should be included in a separate column in the metadata:
For visualization purpose you may also wish to include the information is separate columns.