Check out this tutorials,
Instead of DESeq you try DESeq2.
I would suggest you to learn and understand the fundamentals of differential gene expression(DGE). Try to compile the following first :
- What is the objective of your study?
- What do you have as your data set, experimental setup, replciates, species in question, source of samples etc.
- Fundamentals of DGE - mapping, raw read counts, FPKM, RPKM or TPM.
A nice paper could be found here
Then, finally decide the appropriate tool; though all of them can more or less perform the basic analysis for you.