fastq file

Question

[ali]

Hi everyone, I have a question. Apart from using the fastq-dump --split-files command to download files, is there another command that can split the forward and reverse files if I download my fastq file as one single file? Actually, I have problem with sra-toolkit and I should download fastq file directly and when I download paired-end file its is a single file and .....

Thanks

Answer 1

[GenoMax]

Use sra-explorer tool (sra-explorer : find SRA and FastQ download URLs in a couple of clicks ) to get direct download links for fastq files. You will get different links for the two paired-end files. Here is one example

ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR545/SRR545696/SRR545696_1.fastq.gz
ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR545/SRR545696/SRR545696_2.fastq.gz

Be sure to replace ftp:// with http:// since most browsers do not allow FTP now.

[ali]

Thanks its worked