Teresa Müller

Affiliations

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.

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: Using Galaxy and Managing your Data
• Topic: Introduction to Galaxy Analyses
• Learning Pathway: From Zero To Hero with Python

Tutorials

• Statistics and machine learning / Deep Learning (Part 3) - Convolutional neural networks (CNN) 🧐
• Statistics and machine learning / Basics of machine learning 🧐
• Statistics and machine learning / Regression in Machine Learning 🧐
• Statistics and machine learning / Building the LORIS LLR6 PanCancer Model Using PyCaret 🧐
• Statistics and machine learning / Classification in Machine Learning 🧐
• Statistics and machine learning / Fine tune large protein model (ProtTrans) using HuggingFace 🧐
• Assembly / ERGA post-assembly QC 🧐
• Assembly / Chloroplast genome assembly 🧐
• Assembly / Assembly of the mitochondrial genome from PacBio HiFi reads 🧐
• Assembly / Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data 🧐
• Assembly / Using the VGP workflows to assemble a vertebrate genome with HiFi and Hi-C data 🧐
• Genome Annotation / Long non-coding RNAs (lncRNAs) annotation with FEELnc 🧐
• Genome Annotation / Bacterial Genome Annotation 🧐
• Using Galaxy and Managing your Data / RStudio in Galaxy 🧐
• Using Galaxy and Managing your Data / Use Jupyter notebooks in Galaxy 📝 🧐
• Using Galaxy and Managing your Data / JupyterLab in Galaxy 📝 🧐
• Using Galaxy and Managing your Data / Understanding Galaxy history system 🧐
• Microbiome / Calculating α and β diversity from microbiome taxonomic data 🧐
• Microbiome / Taxonomic Profiling and Visualization of Metagenomic Data 🧐
• Microbiome / Binning of metagenomic sequencing data 🧐
• Microbiome / Identification of the micro-organisms in a beer using Nanopore sequencing ✍️ 🧐
• Variant Analysis / Mutation calling, viral genome reconstruction and lineage/clade assignment from SARS-CoV-2 sequencing data 🧐
• Variant Analysis / Exome sequencing data analysis for diagnosing a genetic disease 🧐
• Transcriptomics / Visualization of RNA-Seq results with Volcano Plot 🧐
• Foundations of Data Science / One protein along the UniProt page 🧐
• Foundations of Data Science / Learning about one gene across biological resources and formats ✍️ 🧐
• Contributing to the Galaxy Training Material / Preview the GTN website as you edit your training material 📝
• Climate / Collaboration with JupyterGIS 🧐
• Single Cell / Generating a single cell matrix using Alevin 🧐
• Single Cell / Clustering 3K PBMCs with Scanpy 🧐
• Single Cell / Clustering 3K PBMCs with Seurat 🧐
• Single Cell / Filter, plot and explore single-cell RNA-seq data with Scanpy (Python) 🧐
• Introduction to Galaxy Analyses / NGS data logistics 🧐
• Introduction to Galaxy Analyses / A short introduction to Galaxy 🧐
• Introduction to Galaxy Analyses / From peaks to genes 📝
• Introduction to Galaxy Analyses / Galaxy Basics for genomics 🧐
• Digital Humanities / Text-Mining Differences in Chinese Newspaper Articles 🧐
• Sequence analysis / Mapping 🧐
• Sequence analysis / Identification and Evolutionary Analysis of Transcription-Associated Proteins in Streptophyte algae and Land plants 🧐
• Sequence analysis / Quality Control 🧐
• Sequence analysis / Quality and contamination control in bacterial isolate using Illumina MiSeq Data 🧐

Slides

• Statistics and machine learning / Introduction to Machine learning 🧐
• Statistics and machine learning / Regression in Machine Learning 🧐
• Statistics and machine learning / Classification in Machine Learning 🧐
• Statistics and machine learning / Fine-tuning Protein Language Model 🧐
• Single Cell / Single-cell Formats and Resources 🧐

FAQs

• How do I re-use equivalent jobs in Galaxy (aka Job Cache)?

Video Recordings

• Using Galaxy and Managing your Data / Use Jupyter notebooks in Galaxy 💬 🗣

Events

• Workshop on high-throughput sequencing data analysis with Galaxy 🧑‍🏫
• A practical introduction to bioinformatics and RNA-seq using Galaxy 🎪 🧑‍🏫
• From zero to hero with Python 🎪
• BioNT Community Event & CarpentryConnect - Heidelberg 2024 🎪
• An introduction to High Performance Computing 🎪
• Code & Collaborate: The FAIRytale of Software Development 🎪
• Awareness in Data Management and Analysis for Industry and Research 🎪
• Workshop on high-throughput sequencing data analysis with Galaxy 🎪 🧑‍🏫
• Galaxy Training Academy 2025 🎪 🧑‍🏫
• From Data to Discovery: Metagenomics, RNA-Seq - NGS Bioinformatics with Galaxy 🎪 🧑‍🏫
• Galaxy Training Academy 2024 🎪 🧑‍🏫

GitHub Activity

github Issues Reported

54 Merged Pull Requests

See all of the github Pull Requests and github Commits by Teresa Müller.

• added workshop in Graz
  template-and-tools
• added new blog post for gta orga call
  news
• Update peaks genes
  introduction
• Gta post
  news
• [WIP] Biont learning path
  template-and-tools

Reviewed 74 PRs

We love our community reviewing each other's work!

• added new blog post for gta orga call
  news
• The new blog post for the bands image analysis toturial
  news
• Gta post
  news
• [WIP] Biont learning path
  template-and-tools
• update contributors for Teresa and Lisanna
  template-and-tools
  digital-humanities

News

External Links

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