hoonjeseong/get_sra

Get SRA data from Bioproject

Get SRA data from BioProject

Get Sequence Read Archive (SRA) data from Bioproject

• If you have any problems with downloading SRA data form NCBI BioProject (PRJNA) summary
• It helps to get SRA data from SRS (sample) ID using BeautifulSoup
• sra_result.csv (example: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA552603/)

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Usage

python download.SRA.py -i [sra_result.csv] -l [WGS or AMPLICOM] -o [output folder] -f [prefetch path from sra tool]

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Require

• python3
• beautifulsoup4
• sra tool kit (http://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/current/)