Download and merge multiple PacBio reads from the same experiment
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3.9 years ago
Sbrillo ▴ 10

Hi!

I want to download all the PacBio reads from this experiment: SRS667972 ( SRX668744 - SRX668812) using the SRA-toolkit

I know from a previous post that something like that should work:

 for (( i = 744; i <= 812; i++ ))
  do
  fastq-dump --accession SRX668$1
done

How can I change the loop to merge all the reads together while downloading them?

next-gen SRAtoolkit SRA archive PacBio reads • 555 views
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