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https://github.com/pcvolkmer/fastq-tools.git
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feat: generate GRZ metadata for file
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27
README.md
27
README.md
@@ -10,12 +10,13 @@ This application provides the following subcommands
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Usage: fastq-tools [OPTIONS] <COMMAND>
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Commands:
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info Show information about input
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scramble Scramble input data
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help Print this message or the help of the given subcommand(s)
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info Show information about input
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grz-metadata Show GRZ metadata
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scramble Scramble input data
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help Print this message or the help of the given subcommand(s)
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Options:
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-i, --input <INPUT_FILE> Input file (optional)
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-i, --input <INPUT_FILE> Input file
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-d, --decompress Decompress input as gzip compressed data
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-h, --help Print help
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-V, --version Print version
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@@ -44,6 +45,24 @@ This will result in output like
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### GRZ Metadata
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To generate GRZ metadata for a file use:
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```shell
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fastq-tools --decompress --input file_fastq.gz grz-metadata
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```
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The use of the `--input` argument is required for this sub command.
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If the file is an uncompressed FASTQ file, you can omit the `--decompress` option.
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Supported file types are:
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* fastq (full support)
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* bam, bed, vcf (limited support)
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### Scramble
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To scramble compressed FASTQ files use:
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