how to get SRA data
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5.1 years ago
mra8187 ▴ 20

Dear all

how can i get this data from ncbi ? https://www.ncbi.nlm.nih.gov/sra/SRX1835119[accn] thank you

genome • 3.5k views
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Use SRAToolkit based on instructions here. Otherwise you can search EBI-ENA and download fastq's from there directly.

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5.1 years ago
Chun-Jie Liu ▴ 280

A simple script to use lftp to download SRA data. Then use fastq-dump to decompress data

SRAToolkit download and decompress data at same time. If you have many sra data to download. You can use the script to download and decompress youself in parallel.

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As long as this is kept is mind: A: fastq dump error

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5.1 years ago
Benn 8.2k

You can use sra toolkit for it:

https://www.ncbi.nlm.nih.gov/books/NBK158899/

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5.1 years ago
bongok ▴ 40

Or use SRAdb in R bioconductor. How To Download All Sra Samples At Once ?

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