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sratoolkit and download

Hello all,

I have been trying to download a .sra file of 20GB using "wget" and "curl" command but due to bad connectivity of internet I am unable to download. I also tryied prefetch and fastq-dump but it did not work (it did work for smaller file). Please suggest me how to proceed.

Thank you

sratoolkit
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updated by Ram Ram • written by qudrat qudrat

1 answer

Try to install aspera utility https://www.ncbi.nlm.nih.gov/books/NBK158899/#SRA_download.accessing_the__ascp_utility, then prefetch the sra file (in my experience prefetch is more stable than fastq-dump), and once it is downloaded use fastq-dump.

EDIT: Also you can try to find that dataset in ENA database and try to download fastq files directly.

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written by grant.hovhannisyan grant.hovhannisyan

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