Using compressed fastq data as tool inputs


  • If the tool accepts fastq input, then .gz compressed data assigned to the datatype fastq.gz is appropriate.
  • If the tool accepts fastqsanger input, then .gz compressed data assigned to the datatype fastqsanger.gz is appropriate.
  • Using uncompressed fastq data is still an option with tools. The choice is yours.

TIP: Avoid labeling compressed data with an uncompressed datatype, and the reverse. Jobs using mismatched datatype versus actual format will fail with an error.

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