On-Site NGS Bioinformatics Courses

Harness our experience from dozens of conducted NGS trainings and our knowledge from years of bioinformatics research for your organization.

No need to travel far to get cutting-edge bioinformatics training - we bring the essential knowledge to you. Your team will benefit from in-house NGS training courses covering topics that are relevant to you, optionally using your own data. Together with you we design the perfect curriculum and suitable hands-on exercises so that your team members do not only have a confident understanding of the sequencing technologies, but are also able to take advantage of it practically. Our instructors are highly professional researchers, each an expert in a different field, allowing us to cover most of the current high-throughput sequencing applications.

Get trained by experts

Our trainers have a proven record of academic and/or industrial experience in NGS data analysis. Because up-to-date expert knowledge is needed to answer your questions and know what is important in the field.

Open source NGS tools

We only use open source tools that are free to use. We try to showcase and compare different tools (e.g. NGS mappers), since not every software fits with every task/question.

Learn effectively with well-curated materials

For an optimal learning experience we carefully prepare our learning materials and example data. All materials, tools and results created during the course are for take home with you.

  •   You decide what you want to learn in the course
  •   You define the size of the group
  •   You can use your own system and/or live dataset(s)
  •   You get professional help on the spot
  •   You save money (no travel costs)
  •   You gain time (no arrival and departure day)
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Also available in German.
  • Linux for Bioinformatics (1-2 days)
    • Introduction to the command line and important commands
    • Combining commands by piping and redirection
    • Introduction to bioinformatics file formats (e.g. FASTA, BED, VCF, WIG) and databases (e.g. UCSC, ENSEMBL)
    • Usage of important bioinformatics toolkits (BEDtools, UCSCtools)
  • Perl for Bioinformatics (1-4 days)
  • R for Bioinformatics (1-4 days)
  • Genomic Data Visualization (1-2 days)
  • Genome/Transcriptome Assembly (1-2 days)
  • Introduction to NGS (2 days)
    • Illumina, 454, IonTorrent, PacBio and Nanopore sequencing technology
    • File formats for sequences (FASTQ)
    • Quality control and preprocessing (adapter clipping, trimming)
    • Introduction to read alignment
    • Comparison of alignment tools (e.g. BWA, Bowtie2, TopHat)
    • Alignment file formats (SAM/BAM format)
    • Use of important NGS toolkits (samtools, BEDtools)
    • Evaluation of alignments, mapping statistics
    • Alignment visualization
  • RNA-seq Data Analysis (2-3 days)
    • RNA-seq alignment (STAR, TopHat)
    • Expression Quantification of genes, isoforms and exons
    • Statistics of differential expression (DE)
    • Practical DE analysis with Bioconductor
    • Biomarker identification and pathway analysis
  • Small RNA-seq Data Analysis (2-3 days)
  • Genomic variation analysis using NGS (2 days)
    • Whole-genome sequencing, whole-exome sequencing, target capture enrichment and amplicon panels
    • Introduction to variant calling and its statistics
    • Running the Genome Analysis Toolkit (GATK) and other variant calling tools
    • Variant calling output (VFC format)
    • Visualisation of SNPs and InDels in a genome browser
    • Variant annotation
    • Variant effect on protein function
  • Methyl-Seq Data Analysis (2-3 days)
  • Standard and Non-Standard Transcript Detection (2-4 days)

Together we prepare a specific course agenda based on the needs and interests of your team. You can choose between available training packages and specify additional topics of interest. Based on your wishes, we will design a personalized course, select suitable experts and work out course materials.

The training will be conducted on your site using either sample data provided by us or using one of your live datasets. You only need to take care of an auditory and the required hardware for your employees.

"As someone who was previously terrified of the command line, this was a terrific course to build confidence in navigating the terminal. Moreover, I walked away with a much deeper understanding of sequencing chemistry and the relative merits of different software packages for analysing different types of sequencing data. I highly recommend this course for any wet lab biologist whether at the student, postdoc, or PI level!" Alexandra McCorkindale, Max Delbrueck Center for Molecular Medicine

"Great Training! Competent trainers and enjoyed the practical part of the training very much." Joerg Schmiedle, F. Hoffmann-La Roche AG

"As a wet lab biologist, I have been dabbling in analysing my RNA-seq data myself. This course gave me a lot of context about mapping and differential expression software that I hadn't been able to grasp on my own. This knowledge will certainly improve the quality of my analyses. Additionally, I learned a lot of handy Linux commands and tricks that make my life a lot easier." Paul Essers, Max-Planck-Institute for the Biology of Ageing

"Good resume of the latest technologies and applications. Definitely will improve the communication with our bioinformatics colleagues for performing the proper analysis and understanding of the data. Thanks for an intensive but nice course." Susana Gonzalez Fernandez-Nino, Bayer Crop Science

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