Working with very large fastq datasets

  • Run FastQC on your data to make sure the format/content is what you expect. Run more QA as needed.
    • Search GTN tutorials with the keyword “qa-qc” for examples.
    • Search Galaxy Help with the keywords “qa-qc” and “fastq” for more help.
  • How to create a single smaller input. Search the tool panel with the keyword “subsample” for tool choices.
  • How to create multiple smaller inputs. Start with Split file to dataset collection, then merge the results back together using a tool specific for the datatype. Example: BAM results? Use MergeSamFiles.
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