.. BIOINFO Guidelines documentation master file, created by
   sphinx-quickstart on Wed Dec 23 12:40:25 2020.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

Welcome to BIOINFO Guidelines's documentation!
==============================================

In these pages we want to track our general documentation and guidelines at *IBBA-CNR*.
The aim of this repository is to describe some useful procedures to newcomers
and save useful information for ourself. We try to generalize
how much as possible in writing this documentation, so maybe this documentation
works also for you.

If you want to contribute, please see the :ref:`Contributing <contributing>`
section of our documentation.

.. toctree::
    :maxdepth: 2
    :caption: Introduction

    contributing

.. toctree::
    :maxdepth: 2
    :caption: Development Environment

    general/conda
    general/docker
    general/singularity
    general/sharing

.. toctree::
    :maxdepth: 2
    :caption: The Terminal

    terminal/ssh
    terminal/tmux
    terminal/R
    terminal/slurm

.. toctree::
    :maxdepth: 2
    :caption: Nextflow

    nextflow/getting-started
    nextflow/running
    nextflow/customize
    nextflow/new-pipeline
    nextflow/troubleshooting

Indices and tables
==================

* :ref:`genindex`
* :ref:`search`