... | ... | @@ -41,6 +41,10 @@ optional arguments: |
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you can use option "-i" to specify the directory
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containing the fastq input files. (REQUIRED if no
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"-i")
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-a, --reanalyze
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Flag to indicate that this run will be a re-analysis
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which needs the already demultiplexed fastq files (one
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per sample)
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-r DIR, --reference-dir DIR
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Directory containing the reference files. It is
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recommended that you use this option if you have
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