CQ Beratung+Bildung GmbH

CQ Beratung+Bildung Berlin
CQ Beratung+Bildung Berlin

NGS Data Analysis and Workflow Management

  • Live-Online/Hybrid
NGS Data Analysis and Workflow Management
Overview
Requirements
Content

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What do you learn?

In this online training, you will learn the most important aspects of NGS data analysis. In addition to handling large NGS datasets and data formats, the focus is on creating complete DNA workflows in Galaxy and Snakemake/Nextflow. Starting with quality control and moving to variant calling, you will first learn how to create DNA workflows in Galaxy and then transfer these steps to the script-based open-source workflow management systems Snakemake/Nextflow. With Snakemake/Nextflow, you can create bioinformatics pipelines independently and reproducibly, allowing for the automatic execution of all necessary analysis steps.

What do you achieve?

Upon completing the training, you will have learned the following:

  • Detailed understanding of NGS file formats (FASTQ, SAM/BAM, VCF).
  • Processing large NGS datasets.
  • Navigating the file system using simple Bash commands via the command line.
  • Introduction to the software manager Conda.
  • Using the command line to apply analytical software.
  • Applying open-source software for all analytical steps.
  • Creating a complete DNA analysis workflow in Galaxy (from quality control to variant calling).
  • Transferring this knowledge to create reproducible and scalable workflows in Snakemake/Nextflow.

Certificate: Upon successful completion of the training, you will receive a certificate from CQ Beratung+Bildung GmbH.

What funding opportunities are available?

Alternative funding options for further training and coaching can be found here.

Tipps

  • NGS Data Analysis and Workflow Management This course is taught exclusively in English. We will be happy to advise you on your participation options.
  • With our English language coaching for bioinformatics and biostatistics, you can optimally prepare yourself for the language requirements of your further education.

Who is the training aimed at?

The target group includes academics in biology, microbiology, chemistry, biochemistry, medicine, mathematics and phaysics.

Your qualification

Professionally:

  • Basic knowledge of molecular biology, especially genetics/genomics.
  • Fundamental understanding of molecular/sequencing technologies (PCR, DNA libraries, Illumina sequencing).
  • Experience in Linux/Bash, R and/or Python is required.

Technically:

  • A computer with at least 30 GB of free disk space.
  • Operating system: Windows, Linux (Ubuntu/Virtual Machine), or Mac OSX.
  • A current browser (Firefox or Chrome).
  • Stable internet connection, camera, speakers, and a microphone. Ideally, we also recommend having two screens, or at least one larger screen.

Your motivation

Efficient and high-quality data analysis of genomic information (DNA) is becoming increasingly important for answering biological and medical questions. This is made possible by the latest Next-Generation Sequencing technologies, which is why bioinformatics skills in handling very large datasets are increasingly in demand.

Topics and procedure

Modul 1: Analysis of NGS Data
  • Introduction to NGS data (Illumina, single- and paired-end data, Phred quality scores)
  • Familiarization with NGS data formats (FASTQ, SAM/BAM, VCF)
  • Processing sequencing data (quality control, trimming, mapping)
  • Creating a variant call workflow in Galaxy and Snakemake/Nextflow
  • Visualization of NGS data with Integrated Genomic Viewer (IGV)
Modul 2: Introduction to Command-Line Tools and Software Management
  • Using Conda to create and manage software environments for NGS data analysis
  • Installation and application of command-line tools (e.g., samtools, Trimmomatic)
Modul 3: Introduction to Workflow Management Systems
  • Basic principles of NGS workflows with Galaxy (browser-based)
  • Creating NGS workflows in Snakemake/Nextflow (script-based, command line, basics of bash)

Technical requirements

  • A computer with at least 30 GB of free hard disk space.
  • Operating system: Windows, Linux (Ubuntu/Virtual Machine), or Mac OSX.
  • A current browser (Firefox or Chrome).
  • Stable internet connection, camera, speakers, and a microphone. Ideally, we also recommend having two screens, or at least one larger screen.

Back to overview

Next course date

06.03.2025 -19.03.2025

Price and range of service

1.489,00 €, VAT exempt

CQ - Biotechnologie

10 online course days, each consisting of 8 teaching units (UE).

Course language

English

We will gladly advise you

Nassim El-Masri

Nassim El Masri

bioinformatik@cq-bildung.de
Tel. +49 30 421539 – 07

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Strelitzer Straße 60
10115 Berlin
Staircase C, Floor 2

Mo – Fr:  08:00 am – 04:00 pm
Telefon: +49 30 4215390
E-Mail: info@cq-bildung.de

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Industriestraße 38
67063 Ludwigshafen am Rhein

Mo – Fr:  08:00 – 16:00
Telefon: +49 621 6850510

Standort

Datenschutzhinweis – GoogleMaps
Diese Webseite verwendet Google Maps, um Kartenmaterial einzubinden. Bitte beachten Sie, dass hierbei persönliche Daten durch Google erfasst und gesammelt werden können. Über die Schaltfläche Externe Inhalte nachladen stimmen Sie aktiv zu, das diese vom Google-Server geladen wird. Weitere Informationen finden sie hier.

Strelitzer Straße 60
10115 Berlin
Aufgang C, Etage 2

Mo – Fr:  08:00 – 16:00
Phone: +49 30 4215390
E-Mail: info@cq-bildung.de