Question: Extracting multiple files with NCBI SRA Tools - BAM Fastq Pileup
gravatar for joseph.andrews
18 months ago by
joseph.andrews20 wrote:


I'm trying to import multiple BAM files from NCBI-SRA. A particular sample has 19 runs, each with its own SRR number.

Do I have to import these one at a time, or can multiple SRR accessions be imported simultaneously?


fastq sra ncbi-sra nbci bam • 841 views
ADD COMMENTlink modified 18 months ago by Jennifer Hillman Jackson25k • written 18 months ago by joseph.andrews20
gravatar for Jennifer Hillman Jackson
18 months ago by
United States
Jennifer Hillman Jackson25k wrote:


The NCBI SRA Tools tools retrieve one dataset per retrieval job.

Entering multiple accessions to launch multiple data retrieval jobs could be a future enhancement. I'll make an enhancement request ticket and link it back here as a comment.

Thanks! Jen, Galaxy team

ADD COMMENTlink written 18 months ago by Jennifer Hillman Jackson25k

Update: The tool was just updated for multiple accession input. For the input, choose the option to input a list of accessions. Create the list, one accession per line, and upload it to Galaxy then select that dataset.

ADD REPLYlink written 18 months ago by Jennifer Hillman Jackson25k
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