Wolfgang Maier

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Contributions

The following list includes only slides and tutorials where the individual or organisation has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.

4 Editorial Roles

This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.

• Topic: SARS-CoV-2
• Topic: One Health
• Topic: Variant Analysis
• Learning Pathway: Epigenetics data analysis with Galaxy

52 Tutorials

• Using Galaxy and Managing your Data / Automating Galaxy workflows using the command line ✍️ 🧐
• Assembly / Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data 🧐
• Assembly / Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads ✍️ 🧐
• Introduction to Galaxy Analyses / NGS data logistics 🧐
• Introduction to Galaxy Analyses / Galaxy Basics for genomics 🧐
• Contributing to the Galaxy Training Material / Creating a new tutorial 🧐
• Variant Analysis / Trio Analysis using Synthetic Datasets from RD-Connect GPAP ✍️ 🧐
• Variant Analysis / Pox virus genome analysis from tiled-amplicon sequencing data ✍️ 🧐
• Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease ✍️ 🧐
• Variant Analysis / Somatic Variant Discovery from WES Data Using Control-FREEC ✍️ 🧐
• Variant Analysis / Avian influenza viral strain analysis from gene segment sequencing data ✍️ 🧐
• Variant Analysis / Mapping and molecular identification of phenotype-causing mutations ✍️ 🧐
• Variant Analysis / Identification of somatic and germline variants from tumor and normal sample pairs ✍️ 🧐
• Variant Analysis / Deciphering Virus Populations - Single Nucleotide Variants (SNVs) and Specificities in Baculovirus Isolates 🧐
• Variant Analysis / From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis 📝
• Variant Analysis / Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data ✍️ 🧐
• Variant Analysis / M. tuberculosis Variant Analysis 🧐
• Transcriptomics / Reference-based RNA-Seq data analysis 🧐
• Transcriptomics / Genome-wide alternative splicing analysis 🧐
• Proteomics / MaxQuant and MSstats for the analysis of TMT data 🧐
• Microbiome / Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition 📝 🧐
• Sequence analysis / Removal of human reads from SARS-CoV-2 sequencing data ✍️ 🧐
• Sequence analysis / Primer and primer scheme design for pan-specific detection and sequencing of viral pathogens across genotypes ✍️ 🧐
• Sequence analysis / Quality Control 🧐
• Sequence analysis / Quality and contamination control in bacterial isolate using Illumina MiSeq Data 🧐
• Ecology / RAD-Seq Reference-based data analysis 🧐
• Ecology / Data submission using ENA upload Tool 🧐
• Ecology / RAD-Seq de-novo data analysis 🧐
• Galaxy Server administration / Galaxy Tool Management with Ephemeris 🧐
• Galaxy Server administration / Data Libraries 🧐
• Evolution / Tree thinking for tuberculosis evolution and epidemiology 📝 🧐
• Evolution / Identifying tuberculosis transmission links: from SNPs to transmission clusters 📝 🧐
• Single Cell / Pre-processing of Single-Cell RNA Data ✍️
• Epigenetics / DNA Methylation data analysis 📝 🧐
• Epigenetics / CUT&RUN data analysis 📝 🧐

1 Slide

• Transcriptomics / Identification of non-canonical ORFs and their potential biological function 🧐

42 FAQs

• How do I create an account on a public Galaxy instance? ✍️
• Is it possible to use alternative tools to those proposed in the tutorial?
• Pick the right Concatenate tool
• Aggiunta di un tag ✍️
• Añadir una etiqueta ✍️
• Hinzufügen eines Tags ✍️
• Adding a tag
• Creare un nuovo file ✍️
• Creación de un nuevo fichero ✍️
• Erstellen einer neuen Datei ✍️
• Creating a new file
• Importare i dati da una libreria di dati ✍️
• Importar datos de una biblioteca de datos ✍️
• Importieren von Daten aus einer Datenbibliothek ✍️
• Importing data from a data library
• Importing data from repositories
• Rinominare un set di dati ✍️
• Cambiar el nombre de un conjunto de datos ✍️
• Umbenennen eines Datensatzes ✍️
• Renaming a dataset
• Creare una nuova cronologia ✍️
• Para la creación de un historial nuevo ✍️
• Créer un nouvel history
• Erstellen eines neuen Verlaufs ✍️
• Creating a new history
• Rinominare una cronologia ✍️
• Umbenennen eines Verlaufs ✍️
• Renaming a history
• Selezionare più insiemi di dati ✍️
• Seleccionar varios conjuntos de datos ✍️
• Mehrere Datensätze auswählen ✍️
• Select multiple datasets
• Downloading the files from the NCBI server fails or takes too long.
• Opening the workflow editor
• Get the workflow id
• Importing a workflow
• Importing a workflow using the Tool Registry Server (TRS) search
• Make a workflow public
• Renaming workflow outputs
• Running a workflow
• Importing and Launching a Dockstore Workflow
• Importing and Launching a WorkflowHub.eu Workflow

5 Video Recordings

• Variant Analysis / Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data 💬 🗣

7 Events

• Workshop on high-throughput sequencing data analysis with Galaxy 🧑‍🏫
• Workshop on high-throughput sequencing data analysis with Galaxy 🧑‍🏫
• Galaxy Training Academy 2025 🧑‍🏫
• A practical workshop for (foodborne) pathogen detection from (direct Nanopore) sequencing data using Galaxy 🧑‍🏫
• Workshop on high-throughput sequencing data analysis with Galaxy 🧑‍🏫
• Galaxy Training Academy 2026 🧑‍🏫
• Galaxy Training Academy 2024 🧑‍🏫

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GitHub Activity

github Issues Reported

72 Merged Pull Requests

See all of the github Pull Requests and github Commits by Wolfgang Maier.

• Update GRANTS.yaml with esg4stars info
  template-and-tools
• Update CONTRIBUTORS.yaml
  template-and-tools
• Update outdated parts of genomics intro and add a sort step
  introduction
  GTA
• Fix tool name in occurences of cat1
  introduction
  transcriptomics
  assembly
  epigenetics
  genome-annotation
• Add maximilianh to CONTRIBUTORS.yaml
  template-and-tools

Reviewed 45 PRs

We love our community reviewing each other's work!

• Small fixes to the NGS data logistics tutorial
  introduction
• Change from fastqc to falco in somatic-variant-discovery tutorial
  variant-analysis
• Change from FastQC to Falco in the tutorials quality-contamination-control and mrsa-illumina
  assembly
  sequence-analysis
• Add myself as contributor in ref-based-rad-seq tutorial
  ecology
• Change to latest MAFFT version in viral-primer-design tutorial
  sequence-analysis

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