The data used in our manuscript can be found at NCBI SRA PRJNA438372.
- Bowtie2: Version 2.2.9
- bedtools: Version 2.25.0
- STAR: Version 2.4.2a
- HTSeq: Version 0.6.1
- edgeR: Version 3.12.1
- MEME: Version 4.12.0
- Circos: Version 0.69-9
- R script for making plots in the manuscript. Please see the R script files.