overview
==============

This section provides an overview of the tools available in NGS statter package. The commands in this package are divided into the following groups based on their purpose and input data types.

.. toctree::
    :maxdepth: 3
    :caption: command groups

    command_groups/alignment
    command_groups/crosslink
    command_groups/fastq
    command_groups/flexbar
    command_groups/genetype
    command_groups/kraken
    command_groups/sample