How to download SRA data, and convert to FASTQ

January 27, 2015

  1. Installed the program followed by tutorial http://khmer-protocols.readthedocs.org/en/v0.8.4/metagenomics/1-quality.html

  2. Download SRA file from the web for the data. go to ncbi choose SRA at search. add keyword and search find FTP address and copy into computer by using 


$ ncftp ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/SRR/SRR492/SRR492065
  1. And convert SRA into FASTQ. fastq-dump –gzip SRR492065.sra Now I have SRR492065.fastq.gz