github.com/aofarrel/SRANWRP/pull_FASTQs_from_SRA_by_biosample_nofile

pull_FASTQs_from_SRA_by_biosample

This workflow is identical to pull_FASTQs_from_SRA_by_biosample except that this version takes in takes in an array of strings, while the other version takes in a textfile containing one string on every line.

Input a text file containing a list of BioSamples, get nested arrays of FQs for each BioSample.

Important notes

  • Any accessions which are not paired Illumina FQs will be skipped. This is intentional.
  • Relies on prefetch, which by default will t

This is a companion discussion topic for the original entry at github.com/aofarrel/SRANWRP/pull_FASTQs_from_SRA_by_biosample_nofile