Question: Extracting multiple files with NCBI SRA Tools - BAM Fastq Pileup
2
gravatar for joseph.andrews
7 months ago by
Canada
joseph.andrews20 wrote:

Hello

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?

Thanks!

fastq sra ncbi-sra nbci bam • 229 views
ADD COMMENTlink modified 7 months ago by Jennifer Hillman Jackson23k • written 7 months ago by joseph.andrews20
1
gravatar for Jennifer Hillman Jackson
7 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

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 7 months ago by Jennifer Hillman Jackson23k
1

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 7 months ago by Jennifer Hillman Jackson23k
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