.. _home-page-about:

**************
About the course
**************

.. autosummary::
   :toctree: generated




.. |luca| image:: images/lcozzuto.jpg
  :alt: Alternative text

.. |toni| image:: images/thermoso.jpg
  :alt: Alternative text
  

.. |julia| image:: images/jponomarenko.jpg
  :alt: Alternative text



.. list-table:: Main instructors:
   :widths: 50 50 50
   :header-rows: 1

   * - Luca Cozzuto
     - Toni Hermoso
     - Julia Ponomarenko
   * - |luca|
     - |toni|
     - |julia|


.. _home-page-dates

Dates, time, location
=========================

* Dates: 

* Location: 

Program
------------------------
  


.. _home-page-outline:

Outline
============

This NGS Quality Control (QC) course will train participants to run FASTQC on short reads obtained with Illumina and interpret the quality control parameters offered by this tool. 

.. _home-page-learning:

Learning objectives
============

* Know the main steps of a library preparation in DNA-seq and RNA-seq, the bias introduced in each of this and solutions to avoid them 
* Learn how the main sequencing technologies works (Illumina for short reads and Nanopore for long reads). 
* Execute/Run the main quality control tools for raw data (FASTQC/NanoPlot and FASQ-Screen) obtained for short and long reads.
* Understand the FASTQ format and interpret the Quality Control report offered by theese tools.
* Aggregate the QC reports of different tools and samples with MULTIQC.
* Execute and learn about the preprocessing tools for adapter and low quality reads removal (TRIMMOMATIC, Cutadapter, Sickle, Fastp).

.. _home-page-prereq:

Prerequisite / technical requirements
============

Being comfortable working with the CLI (command-line interface) in a Linux-based environment (Introductory courses to CLI may be recommended)git .