NGS Data Analysis and Workflow Management
Type of event
- Live-Online
Who is the training course aimed at?
The target group includes academics in biology, microbiology, chemistry, biochemistry, medicine, mathematics and phaysics.
What requirements do I need?
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.
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.
What will you achieve?
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.
Upon completion of the training, you will have learned the following:
- Detailed understanding of NGS file formats (FASTQ, SAM/BAM, VCF).
- Processing large NGS datasets.
- Navigation via the command line with simple Bash commands in the file system.
- Getting to know the Conda software manager.
- Using the command line to apply analytical software.
- Application of open-source software for all analytical steps.
- Creation of 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.
Completion: Upon successful completion of the training course, you will receive a certificate from CQ Beratung+Bildung GmbH.
What topics does the training course cover?
- 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)
- Using Conda to create and manage software environments for NGS data analysis
- Installation and application of command-line tools (e.g., samtools, Trimmomatic)
- 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.
Next course date
On request
Price and range of service
1.489,00 €, VAT exempt
10 live-online course days with 8 teaching units of 45 minutes each
Course language: English
100% funding possible with an education voucher (BGS)
from the employment agency or job center
Tips and information
- CQ is AZAV-certified as a training provider and the ‘Bioinformatics and Biostatistics’ training course is approved for employment promotion. The subject of NGS is part of the certified course and can be subsidised with an education voucher.
- This course is taught exclusively in English. We will be happy to advise you on your participation options.
- With our English language coaching for scientists, laboratory technicians and medical employees, you can optimally prepare for the language requirements of your further training.
- Find out what our clients say about us – check out the reviews now.
- Are you or have you been a customer of CQ and satisfied with our services? Recommend us to others and secure a reward voucher worth €100! Feel free to speak to our course instructors.
Contact person
Nassim El Masri
Antje Sonntag
Tips and information
- CQ is AZAV-certified as a training provider and the ‘Bioinformatics and Biostatistics’ training course is approved for employment promotion. The subject of NGS is part of the certified course and can be subsidised with an education voucher.
- This course is taught exclusively in English. We will be happy to advise you on your participation options.
- With our English language coaching for scientists, laboratory technicians and medical employees, you can optimally prepare for the language requirements of your further training.
- Find out what our clients say about us – check out the reviews now.
- Are you or have you been a customer of CQ and satisfied with our services? Recommend us to others and secure a reward voucher worth €100! Feel free to speak to our course instructors.
Nassim El Masri
Antje Sonntag
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