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Welcome to the ngs wiki! Here, you'll find information regarding the capabilities and limitations of the ngs command line tool. With any questions, please participate in the discussions or file an issue.

Supported functionality

The following subcommands are supported by the tool. You can find a dedicated page to each subcommand in the right navigation bar.

Command line tool for processing next-generation sequencing data.

Usage: ngs [OPTIONS] <COMMAND>

Commands:
  convert   Convert between next-generation sequencing formats
  derive    Forensic analysis tool for next-generation sequencing data
  generate  Generates a BAM file from a given reference genome
  index     Generates the index file to various next-generation sequencing files
  list      Utility to list various supported items in this command line tool
  plot      Produces plots for data generated by `ngs qc`
  qc        Generates quality control metrics for BAM files
  view      Views various next-generation sequencing files, sometimes with a query region
  help      Print this message or the help of the given subcommand(s)

Options:
  -q, --quiet    Only errors are printed to the stderr stream
  -v, --verbose  All available information, including debug information, is printed to stderr
  -h, --help     Print help
  -V, --version  Print version