NGS Datenanalyse und Workflow-Managementsysteme

Groupes cibles:

keine Angaben

Connaissances spécialisées:

Grundsätzliche Kenntnisse der Molekularbiologie, besonders der Genetik/Genomik; von Molekular-/Sequenziertechnologien (PCR, DNA-Bibliotheken, Illumina-Sequenzierung)

Connaissances techniques:

Computer mit freiem Festplattenspeicherplatz von min. 30 GB; Linux (Ubuntu) oder Mac OSX als Betriebssystem; ein aktueller Browser (Firefox oder Chrome).

Classification de l’Agence pour l’emploi:

keine Angaben

Contenus

In this online training course, you will learn the essential aspects of NGS data analysis and workflow management. This includes:
Handling large NGS datasets and understanding various data formats.
Building and applying complete DNA analysis workflows using Galaxy and Snakemake/Nextflow.
Starting with quality control and progressing to variant calling, you will create DNA workflows in Galaxy and later transfer these steps to script-based open-source workflow management systems like Snakemake or Nextflow.
Using these tools, you will develop reproducible and automated bioinformatics pipelines.
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What Will You Achieve?
By the end of this training, you will have acquired:
A comprehensive understanding of NGS file formats (FASTQ, SAM/BAM, VCF).
Skills in managing and processing large NGS datasets.
Proficiency in navigating the command line using basic Bash commands.
Knowledge of using Conda, a software manager.
Experience in applying analytical software via the command line.
Competence in using open-source software for all analytical steps.
The ability to create a complete DNA analysis workflow in Galaxy (from quality control to variant calling).
Expertise to translate this knowledge into building reproducible and scalable workflows in Snakemake or Nextflow.
Certification: Upon successful completion of the course, you will receive a certificate from CQ Beratung+Bildung GmbH.
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What Funding Options Are Available?
This training is AZAV-certified and eligible for funding under the employment promotion program.
It is part of the certified "Bioinformatics and Biostatistics" course and can be funded with a training voucher.
Program Number for Employment Agencies/Job Centers: 962/26/2024.
Additional funding opportunities for training and coaching can be found here.
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Tips
Course Language: The training is conducted entirely in English. We offer language coaching to help you prepare for the course.
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Who Is This Training For?
The course is designed for academics in the fields of:
Biology, Microbiology, Biochemistry, Chemistry, Medicine, Mathematics, and Physics.
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Your Qualifications
Subject Knowledge Requirements:
Basic knowledge of molecular biology (especially genetics/genomics).
Fundamental understanding of sequencing technologies (PCR, DNA libraries, Illumina sequencing).
Experience with Linux/Bash, R, and/or Python.
Technical Requirements:
A computer with at least 30 GB of free storage space.
Operating System: Windows, Linux (Ubuntu/Virtual Machine), or Mac OSX.
An up-to-date browser (Firefox or Chrome).
Stable internet connection, webcam, speakers, and microphone. Ideally, two monitors or one large screen.
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Your Motivation
Efficient and high-quality analysis of genomic data (DNA) is increasingly essential for addressing biological and medical research questions. Leveraging cutting-edge technologies like Next-Generation Sequencing (NGS), this training equips you with the bioinformatics skills needed to work with large datasets and tackle real-world challenges in genomics.
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Topics and Course Outline
Module 1: NGS Data Analysis
Introduction to NGS data formats (FASTQ, SAM/BAM, VCF).
Processing and quality control of large datasets.
Module 2: Introduction to Command-Line Tools and Software Management
Basics of Bash commands and navigation.
Using software managers like Conda.
Module 3: Introduction to Workflow Management Systems
Creating DNA workflows in Galaxy.
Transferring workflows to Snakemake or Nextflow.
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Technical Requirements
Computer with at least 30 GB of free storage space.
Operating System: Windows, Linux, or Mac OSX.
An up-to-date browser (Firefox or Chrome).
Stable internet connection, webcam, speakers, and microphone.
Ideally, two monitors or a large screen.