Replace R DESeq2 script with Python alternative

- [x] remove [run_deseq.r](https://github.com/abearab/CanDI/blob/master/scripts/run_deseq.r)
- [x] write DE analysis script using [pyDESeq2](https://github.com/owkin/PyDESeq2)
- [ ] update example notebooks