I a post-doc at the University of British Columbia, Canada and I'm pretty new to RNA-seq data analysis. I want to do the TMM normalization on my RNA-seq data using EdgeR package in R. I have two questions:
1) How can I convert .fastq files to .txt files to be able to feed them into the EdgeR package?
2) My RNA-seq data are paired sequence .fastq files. What quality control should I do on them and how should I merge them together prior to analysis?
Thanks for the help,