I would like to use publicly available datasets (next generation of sequencing including both DNA and RNA sequencing data) associated to “ovarian cancer” existing in Sequence Read Archive (SRA) or any other resources.
May someone let me know which package(s) is (are) available through Bioconductor allowing me to play with the software so that I can both EXTRACT and ANALYZE the data?
To extract the data, I used SRAdb, but I don’t know how to use “rs” (please see below)
rs = getSRA(search terms = "ovarian cancer", out types = c("run", "study"), sra con = sra con)
to analyze the data. I appreciate if someone can provide me some information.