Overview

• Teaching Activities
  • Courses / Workshops
  • Tutorials
• Software
  • DELLY, Structural Variant Detection
  • SeqAn, Sequence Analysis Library
• Publications
  • List of publications.

Courses / Workshops

• Metagenomics: From the Bench to Data Analysis, April 14 - 20, 2013 at EMBL Heidelberg, Germany
  DNA Variant Calling and De Novo Assembly (metagenomics2013.pdf)
• Illumina User Group Meeting, April 15 - 16, 2013 at EMBL Heidelberg, Germany
  DNA Variant Detection (ugmdnavariant.pdf)
• EMBL Course: Towards Next-Generation Sequencing Data Integration, September 24 - 26, 2012 at EMBL Heidelberg, Germany
  SNV and SV Calling in Genomic Sequencing Data (ngs2012.pdf, ngs_handout2012.pdf)
• CEITEC, September 19th, 2012, Brno, Czech Republic
  Analysis of whole-genome sequencing data in childhood brain tumors links catastrophic DNA alterations with TP53 mutations (ceitec2012.pdf)
• ECCB 2012, September 12th, 2012, Basel, Switzerland
  DELLY: structural variant discovery by integrated paired-end and split-read analysis (eccb2012.pdf)
• PhD Symposium, February 24th, 2012 at German Cancer Research Center (DKFZ), Germany
  Dissecting Genomic Structural Rearrangements in Childhood Medulloblastoma Genomes (phdsymposium.pdf)
• Genome Biology Retreat, February 2nd, 2012, Germany
  Catastrophic DNA Alterations in Childhood Brain Tumor Development (genomebiology12.pdf)
• PreDoc Course, November 7 - 9, 2011 at EMBL Heidelberg, Germany
  Detecting Large-scale Genetic Variation in the Genome (predoc2011.pdf, handout2011.pdf)
• Metagenomics: From the Bench to Data Analysis, October 23 - 29, 2011 at EMBL Heidelberg, Germany
  Next Generation Sequencing Data Analysis (metagenomics2011.pdf)
• EMBL Master Course, July 18 - 20, 2011 at EMBL Heidelberg, Germany
  Variant Calling from Genomic Sequencing Data (variant.pdf)
• EMBL Master Course, June 14 - 18, 2011 at EMBL Heidelberg, Germany
  Target Enrichment and NGS (target.pdf)
• Bioinformatics Course, April 27, 2011 at Budweis, Czech Republic
  SNPs, Short InDels and Structural Variant Calling (budweis.pdf)
• PreDoc Course 2010, November 8 - 10, 2010 at EMBL Heidelberg, Germany
  Structural Variant Detection (predoc2010.pdf)
• Genome Capture and Next-Generation Sequencing, June 14 - 18, 2010 at EMBL Heidelberg, Germany
  Data Analysis for Genome Capture (capture.pdf, capslides.pdf)
• Advanced RNA-Seq and ChIP-Seq data analysis, June 7 - 9, 2010 at EMBL Heidelberg, Germany
  RNA-Seq, Short Read Alignment (rna_seq.pdf)
• Introductory workshop on bioinformatics for high-throughput sequencing, November 25 - 27, 2009 at EMBL Heidelberg, Germany
  Assembly (assembly.pdf)

Tutorials

• Linux, R Statistics and Awk Primer (primer.pdf)
• SAM/BAM Tutorial (sam.pdf, data.tar.gz)
• Calling Variants in NGS data (http://www.embl.de/~rausch/minihowto.html)

DELLY

• DELLY is an integrated split-read and paired-end structural variant discovery method suited for massively parallel sequencing data. The most recent version of the package is available at www.embl.de/~rausch/delly.html.

SeqAn

• SeqAn is an open source C++ library of efficient algorithms and data structures for the analysis of biological sequences. The most recent version of the library is available at www.seqan.de.

Publications

• Publications are listed on Google Scholar.